-- dump date 20140618_223248 -- class Genbank::misc_feature -- table misc_feature_note -- id note 398511000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 398511000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 398511000003 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 398511000004 Walker A motif; other site 398511000005 ATP binding site [chemical binding]; other site 398511000006 Walker B motif; other site 398511000007 arginine finger; other site 398511000008 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 398511000009 DnaA box-binding interface [nucleotide binding]; other site 398511000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 398511000011 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 398511000012 putative DNA binding surface [nucleotide binding]; other site 398511000013 dimer interface [polypeptide binding]; other site 398511000014 beta-clamp/clamp loader binding surface; other site 398511000015 beta-clamp/translesion DNA polymerase binding surface; other site 398511000016 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 398511000017 recombination protein F; Reviewed; Region: recF; PRK00064 398511000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 398511000019 Walker A/P-loop; other site 398511000020 ATP binding site [chemical binding]; other site 398511000021 Q-loop/lid; other site 398511000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511000023 ABC transporter signature motif; other site 398511000024 Walker B; other site 398511000025 D-loop; other site 398511000026 H-loop/switch region; other site 398511000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 398511000028 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 398511000029 Mg2+ binding site [ion binding]; other site 398511000030 G-X-G motif; other site 398511000031 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 398511000032 anchoring element; other site 398511000033 dimer interface [polypeptide binding]; other site 398511000034 ATP binding site [chemical binding]; other site 398511000035 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 398511000036 active site 398511000037 putative metal-binding site [ion binding]; other site 398511000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 398511000039 DNA gyrase subunit A; Validated; Region: PRK05560 398511000040 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 398511000041 CAP-like domain; other site 398511000042 active site 398511000043 primary dimer interface [polypeptide binding]; other site 398511000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398511000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398511000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398511000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398511000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398511000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398511000050 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398511000051 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398511000052 Zn2+ binding site [ion binding]; other site 398511000053 Mg2+ binding site [ion binding]; other site 398511000054 YaaC-like Protein; Region: YaaC; pfam14175 398511000055 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 398511000056 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 398511000057 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 398511000058 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 398511000059 active site 398511000060 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 398511000061 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 398511000062 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 398511000063 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 398511000064 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 398511000065 active site 398511000066 multimer interface [polypeptide binding]; other site 398511000067 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 398511000068 predicted active site [active] 398511000069 catalytic triad [active] 398511000070 seryl-tRNA synthetase; Provisional; Region: PRK05431 398511000071 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 398511000072 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 398511000073 dimer interface [polypeptide binding]; other site 398511000074 active site 398511000075 motif 1; other site 398511000076 motif 2; other site 398511000077 motif 3; other site 398511000078 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 398511000079 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398511000080 Walker A/P-loop; other site 398511000081 ATP binding site [chemical binding]; other site 398511000082 Q-loop/lid; other site 398511000083 ABC transporter signature motif; other site 398511000084 Walker B; other site 398511000085 D-loop; other site 398511000086 H-loop/switch region; other site 398511000087 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 398511000088 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 398511000089 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398511000090 Walker A/P-loop; other site 398511000091 ATP binding site [chemical binding]; other site 398511000092 Q-loop/lid; other site 398511000093 ABC transporter signature motif; other site 398511000094 Walker B; other site 398511000095 D-loop; other site 398511000096 H-loop/switch region; other site 398511000097 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 398511000098 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398511000099 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 398511000100 dimer interface [polypeptide binding]; other site 398511000101 conserved gate region; other site 398511000102 ABC-ATPase subunit interface; other site 398511000103 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 398511000104 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 398511000105 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 398511000106 dimer interface [polypeptide binding]; other site 398511000107 conserved gate region; other site 398511000108 putative PBP binding loops; other site 398511000109 ABC-ATPase subunit interface; other site 398511000110 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 398511000111 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398511000112 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 398511000113 nucleoside/Zn binding site; other site 398511000114 dimer interface [polypeptide binding]; other site 398511000115 catalytic motif [active] 398511000116 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 398511000117 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 398511000118 Walker A motif; other site 398511000119 ATP binding site [chemical binding]; other site 398511000120 Walker B motif; other site 398511000121 arginine finger; other site 398511000122 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 398511000123 hypothetical protein; Validated; Region: PRK00153 398511000124 recombination protein RecR; Reviewed; Region: recR; PRK00076 398511000125 RecR protein; Region: RecR; pfam02132 398511000126 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 398511000127 putative active site [active] 398511000128 putative metal-binding site [ion binding]; other site 398511000129 tetramer interface [polypeptide binding]; other site 398511000130 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 398511000131 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 398511000132 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 398511000133 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 398511000134 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 398511000135 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398511000136 catalytic residue [active] 398511000137 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 398511000138 thymidylate kinase; Validated; Region: tmk; PRK00698 398511000139 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 398511000140 TMP-binding site; other site 398511000141 ATP-binding site [chemical binding]; other site 398511000142 Protein of unknown function (DUF970); Region: DUF970; pfam06153 398511000143 DNA polymerase III subunit delta'; Validated; Region: PRK08058 398511000144 DNA polymerase III subunit delta'; Validated; Region: PRK08485 398511000145 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 398511000146 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 398511000147 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 398511000148 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 398511000149 S-adenosylmethionine binding site [chemical binding]; other site 398511000150 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 398511000151 GIY-YIG motif/motif A; other site 398511000152 putative active site [active] 398511000153 putative metal binding site [ion binding]; other site 398511000154 Predicted methyltransferases [General function prediction only]; Region: COG0313 398511000155 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 398511000156 putative SAM binding site [chemical binding]; other site 398511000157 putative homodimer interface [polypeptide binding]; other site 398511000158 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 398511000159 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 398511000160 NurA domain; Region: NurA; pfam09376 398511000161 HerA helicase [Replication, recombination, and repair]; Region: COG0433 398511000162 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 398511000163 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 398511000164 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 398511000165 active site 398511000166 HIGH motif; other site 398511000167 KMSKS motif; other site 398511000168 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 398511000169 tRNA binding surface [nucleotide binding]; other site 398511000170 anticodon binding site; other site 398511000171 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 398511000172 dimer interface [polypeptide binding]; other site 398511000173 putative tRNA-binding site [nucleotide binding]; other site 398511000174 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 398511000175 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 398511000176 active site 398511000177 Domain of unknown function (DUF348); Region: DUF348; pfam03990 398511000178 Domain of unknown function (DUF348); Region: DUF348; pfam03990 398511000179 G5 domain; Region: G5; pfam07501 398511000180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 398511000181 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 398511000182 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 398511000183 putative active site [active] 398511000184 putative metal binding site [ion binding]; other site 398511000185 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 398511000186 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 398511000187 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 398511000188 S-adenosylmethionine binding site [chemical binding]; other site 398511000189 YabG peptidase U57; Region: Peptidase_U57; pfam05582 398511000190 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 398511000191 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 398511000192 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 398511000193 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 398511000194 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 398511000195 pur operon repressor; Provisional; Region: PRK09213 398511000196 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 398511000197 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398511000198 active site 398511000199 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 398511000200 homotrimer interaction site [polypeptide binding]; other site 398511000201 putative active site [active] 398511000202 regulatory protein SpoVG; Reviewed; Region: PRK13259 398511000203 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 398511000204 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 398511000205 Substrate binding site; other site 398511000206 Mg++ binding site; other site 398511000207 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 398511000208 active site 398511000209 substrate binding site [chemical binding]; other site 398511000210 CoA binding site [chemical binding]; other site 398511000211 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 398511000212 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 398511000213 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398511000214 active site 398511000215 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 398511000216 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 398511000217 5S rRNA interface [nucleotide binding]; other site 398511000218 CTC domain interface [polypeptide binding]; other site 398511000219 L16 interface [polypeptide binding]; other site 398511000220 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 398511000221 putative active site [active] 398511000222 catalytic residue [active] 398511000223 Protein of unknown function (DUF2757); Region: DUF2757; pfam10955 398511000224 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 398511000225 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 398511000226 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 398511000227 ATP binding site [chemical binding]; other site 398511000228 putative Mg++ binding site [ion binding]; other site 398511000229 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 398511000230 nucleotide binding region [chemical binding]; other site 398511000231 ATP-binding site [chemical binding]; other site 398511000232 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 398511000233 stage V sporulation protein T; Region: spore_V_T; TIGR02851 398511000234 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 398511000235 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 398511000236 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 398511000237 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 398511000238 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 398511000239 putative SAM binding site [chemical binding]; other site 398511000240 putative homodimer interface [polypeptide binding]; other site 398511000241 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 398511000242 homodimer interface [polypeptide binding]; other site 398511000243 metal binding site [ion binding]; metal-binding site 398511000244 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 398511000245 homodimer interface [polypeptide binding]; other site 398511000246 active site 398511000247 putative chemical substrate binding site [chemical binding]; other site 398511000248 metal binding site [ion binding]; metal-binding site 398511000249 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 398511000250 RNA binding surface [nucleotide binding]; other site 398511000251 sporulation protein YabP; Region: spore_yabP; TIGR02892 398511000252 spore cortex biosynthesis protein YabQ; Region: spore_yabQ; TIGR02893 398511000253 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 398511000254 Septum formation initiator; Region: DivIC; pfam04977 398511000255 hypothetical protein; Provisional; Region: PRK08582 398511000256 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 398511000257 RNA binding site [nucleotide binding]; other site 398511000258 stage II sporulation protein E; Region: spore_II_E; TIGR02865 398511000259 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 398511000260 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 398511000261 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 398511000262 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 398511000263 metal ion-dependent adhesion site (MIDAS); other site 398511000264 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 398511000265 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398511000266 active site 398511000267 ATP binding site [chemical binding]; other site 398511000268 substrate binding site [chemical binding]; other site 398511000269 activation loop (A-loop); other site 398511000270 Uncharacterized conserved protein [Function unknown]; Region: COG2966 398511000271 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 398511000272 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 398511000273 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 398511000274 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 398511000275 Ligand Binding Site [chemical binding]; other site 398511000276 TilS substrate C-terminal domain; Region: TilS_C; smart00977 398511000277 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398511000278 active site 398511000279 FtsH Extracellular; Region: FtsH_ext; pfam06480 398511000280 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 398511000281 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 398511000282 Walker A motif; other site 398511000283 ATP binding site [chemical binding]; other site 398511000284 Walker B motif; other site 398511000285 arginine finger; other site 398511000286 Peptidase family M41; Region: Peptidase_M41; pfam01434 398511000287 pantothenate kinase; Reviewed; Region: PRK13318 398511000288 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 398511000289 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 398511000290 dimerization interface [polypeptide binding]; other site 398511000291 domain crossover interface; other site 398511000292 redox-dependent activation switch; other site 398511000293 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 398511000294 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 398511000295 dimer interface [polypeptide binding]; other site 398511000296 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511000297 catalytic residue [active] 398511000298 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 398511000299 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 398511000300 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 398511000301 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 398511000302 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 398511000303 glutamine binding [chemical binding]; other site 398511000304 catalytic triad [active] 398511000305 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 398511000306 4-amino-4-deoxychorismate lyase; Provisional; Region: PRK07650 398511000307 homodimer interface [polypeptide binding]; other site 398511000308 substrate-cofactor binding pocket; other site 398511000309 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511000310 catalytic residue [active] 398511000311 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 398511000312 dihydropteroate synthase; Region: DHPS; TIGR01496 398511000313 substrate binding pocket [chemical binding]; other site 398511000314 dimer interface [polypeptide binding]; other site 398511000315 inhibitor binding site; inhibition site 398511000316 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 398511000317 homooctamer interface [polypeptide binding]; other site 398511000318 active site 398511000319 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 398511000320 catalytic center binding site [active] 398511000321 ATP binding site [chemical binding]; other site 398511000322 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 398511000323 non-specific DNA binding site [nucleotide binding]; other site 398511000324 salt bridge; other site 398511000325 sequence-specific DNA binding site [nucleotide binding]; other site 398511000326 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 398511000327 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 398511000328 FMN binding site [chemical binding]; other site 398511000329 active site 398511000330 catalytic residues [active] 398511000331 substrate binding site [chemical binding]; other site 398511000332 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 398511000333 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 398511000334 dimer interface [polypeptide binding]; other site 398511000335 putative anticodon binding site; other site 398511000336 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 398511000337 motif 1; other site 398511000338 active site 398511000339 motif 2; other site 398511000340 motif 3; other site 398511000341 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 398511000342 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 398511000343 UvrB/uvrC motif; Region: UVR; pfam02151 398511000344 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 398511000345 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 398511000346 ADP binding site [chemical binding]; other site 398511000347 phosphagen binding site; other site 398511000348 substrate specificity loop; other site 398511000349 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 398511000350 Clp amino terminal domain; Region: Clp_N; pfam02861 398511000351 Clp amino terminal domain; Region: Clp_N; pfam02861 398511000352 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 398511000353 Walker A motif; other site 398511000354 ATP binding site [chemical binding]; other site 398511000355 Walker B motif; other site 398511000356 arginine finger; other site 398511000357 UvrB/uvrC motif; Region: UVR; pfam02151 398511000358 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 398511000359 Walker A motif; other site 398511000360 ATP binding site [chemical binding]; other site 398511000361 Walker B motif; other site 398511000362 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398511000363 DNA repair protein RadA; Provisional; Region: PRK11823 398511000364 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 398511000365 Walker A motif/ATP binding site; other site 398511000366 ATP binding site [chemical binding]; other site 398511000367 Walker B motif; other site 398511000368 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 398511000369 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 398511000370 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 398511000371 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 398511000372 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 398511000373 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 398511000374 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 398511000375 putative active site [active] 398511000376 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 398511000377 substrate binding site; other site 398511000378 dimer interface; other site 398511000379 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 398511000380 homotrimer interaction site [polypeptide binding]; other site 398511000381 zinc binding site [ion binding]; other site 398511000382 CDP-binding sites; other site 398511000383 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 398511000384 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 398511000385 active site 398511000386 HIGH motif; other site 398511000387 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 398511000388 active site 398511000389 KMSKS motif; other site 398511000390 serine O-acetyltransferase; Region: cysE; TIGR01172 398511000391 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 398511000392 trimer interface [polypeptide binding]; other site 398511000393 active site 398511000394 substrate binding site [chemical binding]; other site 398511000395 CoA binding site [chemical binding]; other site 398511000396 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 398511000397 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 398511000398 active site 398511000399 HIGH motif; other site 398511000400 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 398511000401 KMSKS motif; other site 398511000402 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 398511000403 tRNA binding surface [nucleotide binding]; other site 398511000404 anticodon binding site; other site 398511000405 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 398511000406 active site 398511000407 metal binding site [ion binding]; metal-binding site 398511000408 dimerization interface [polypeptide binding]; other site 398511000409 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 398511000410 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 398511000411 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 398511000412 YacP-like NYN domain; Region: NYN_YacP; cl01491 398511000413 RNA polymerase factor sigma-70; Validated; Region: PRK08295 398511000414 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511000415 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 398511000416 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 398511000417 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 398511000418 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 398511000419 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 398511000420 putative homodimer interface [polypeptide binding]; other site 398511000421 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 398511000422 heterodimer interface [polypeptide binding]; other site 398511000423 homodimer interface [polypeptide binding]; other site 398511000424 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 398511000425 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 398511000426 23S rRNA interface [nucleotide binding]; other site 398511000427 L7/L12 interface [polypeptide binding]; other site 398511000428 putative thiostrepton binding site; other site 398511000429 L25 interface [polypeptide binding]; other site 398511000430 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 398511000431 mRNA/rRNA interface [nucleotide binding]; other site 398511000432 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 398511000433 23S rRNA interface [nucleotide binding]; other site 398511000434 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 398511000435 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 398511000436 core dimer interface [polypeptide binding]; other site 398511000437 peripheral dimer interface [polypeptide binding]; other site 398511000438 L10 interface [polypeptide binding]; other site 398511000439 L11 interface [polypeptide binding]; other site 398511000440 putative EF-Tu interaction site [polypeptide binding]; other site 398511000441 putative EF-G interaction site [polypeptide binding]; other site 398511000442 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 398511000443 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 398511000444 S-adenosylmethionine binding site [chemical binding]; other site 398511000445 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 398511000446 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 398511000447 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 398511000448 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 398511000449 RPB1 interaction site [polypeptide binding]; other site 398511000450 RPB10 interaction site [polypeptide binding]; other site 398511000451 RPB11 interaction site [polypeptide binding]; other site 398511000452 RPB3 interaction site [polypeptide binding]; other site 398511000453 RPB12 interaction site [polypeptide binding]; other site 398511000454 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 398511000455 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 398511000456 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 398511000457 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 398511000458 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 398511000459 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 398511000460 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 398511000461 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 398511000462 G-loop; other site 398511000463 DNA binding site [nucleotide binding] 398511000464 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 398511000465 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 398511000466 S17 interaction site [polypeptide binding]; other site 398511000467 S8 interaction site; other site 398511000468 16S rRNA interaction site [nucleotide binding]; other site 398511000469 streptomycin interaction site [chemical binding]; other site 398511000470 23S rRNA interaction site [nucleotide binding]; other site 398511000471 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 398511000472 30S ribosomal protein S7; Validated; Region: PRK05302 398511000473 elongation factor G; Reviewed; Region: PRK00007 398511000474 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 398511000475 G1 box; other site 398511000476 putative GEF interaction site [polypeptide binding]; other site 398511000477 GTP/Mg2+ binding site [chemical binding]; other site 398511000478 Switch I region; other site 398511000479 G2 box; other site 398511000480 G3 box; other site 398511000481 Switch II region; other site 398511000482 G4 box; other site 398511000483 G5 box; other site 398511000484 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 398511000485 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 398511000486 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 398511000487 elongation factor Tu; Reviewed; Region: PRK00049 398511000488 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 398511000489 G1 box; other site 398511000490 GEF interaction site [polypeptide binding]; other site 398511000491 GTP/Mg2+ binding site [chemical binding]; other site 398511000492 Switch I region; other site 398511000493 G2 box; other site 398511000494 G3 box; other site 398511000495 Switch II region; other site 398511000496 G4 box; other site 398511000497 G5 box; other site 398511000498 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 398511000499 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 398511000500 Antibiotic Binding Site [chemical binding]; other site 398511000501 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 398511000502 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 398511000503 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 398511000504 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 398511000505 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 398511000506 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 398511000507 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 398511000508 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 398511000509 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 398511000510 putative translocon binding site; other site 398511000511 protein-rRNA interface [nucleotide binding]; other site 398511000512 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 398511000513 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 398511000514 G-X-X-G motif; other site 398511000515 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 398511000516 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 398511000517 23S rRNA interface [nucleotide binding]; other site 398511000518 5S rRNA interface [nucleotide binding]; other site 398511000519 putative antibiotic binding site [chemical binding]; other site 398511000520 L25 interface [polypeptide binding]; other site 398511000521 L27 interface [polypeptide binding]; other site 398511000522 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 398511000523 23S rRNA interface [nucleotide binding]; other site 398511000524 putative translocon interaction site; other site 398511000525 signal recognition particle (SRP54) interaction site; other site 398511000526 L23 interface [polypeptide binding]; other site 398511000527 trigger factor interaction site; other site 398511000528 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 398511000529 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 398511000530 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 398511000531 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 398511000532 RNA binding site [nucleotide binding]; other site 398511000533 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 398511000534 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 398511000535 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 398511000536 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 398511000537 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 398511000538 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 398511000539 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 398511000540 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 398511000541 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 398511000542 23S rRNA interface [nucleotide binding]; other site 398511000543 5S rRNA interface [nucleotide binding]; other site 398511000544 L27 interface [polypeptide binding]; other site 398511000545 L5 interface [polypeptide binding]; other site 398511000546 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 398511000547 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 398511000548 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 398511000549 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 398511000550 23S rRNA binding site [nucleotide binding]; other site 398511000551 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 398511000552 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 398511000553 SecY translocase; Region: SecY; pfam00344 398511000554 adenylate kinase; Reviewed; Region: adk; PRK00279 398511000555 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 398511000556 AMP-binding site [chemical binding]; other site 398511000557 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 398511000558 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 398511000559 active site 398511000560 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 398511000561 RNA binding site [nucleotide binding]; other site 398511000562 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 398511000563 rRNA binding site [nucleotide binding]; other site 398511000564 predicted 30S ribosome binding site; other site 398511000565 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 398511000566 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 398511000567 30S ribosomal protein S13; Region: bact_S13; TIGR03631 398511000568 30S ribosomal protein S11; Validated; Region: PRK05309 398511000569 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 398511000570 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 398511000571 alphaNTD homodimer interface [polypeptide binding]; other site 398511000572 alphaNTD - beta interaction site [polypeptide binding]; other site 398511000573 alphaNTD - beta' interaction site [polypeptide binding]; other site 398511000574 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 398511000575 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 398511000576 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 398511000577 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 398511000578 Walker A/P-loop; other site 398511000579 ATP binding site [chemical binding]; other site 398511000580 Q-loop/lid; other site 398511000581 ABC transporter signature motif; other site 398511000582 Walker B; other site 398511000583 D-loop; other site 398511000584 H-loop/switch region; other site 398511000585 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 398511000586 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 398511000587 Walker A/P-loop; other site 398511000588 ATP binding site [chemical binding]; other site 398511000589 Q-loop/lid; other site 398511000590 ABC transporter signature motif; other site 398511000591 Walker B; other site 398511000592 D-loop; other site 398511000593 H-loop/switch region; other site 398511000594 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 398511000595 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 398511000596 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 398511000597 dimerization interface 3.5A [polypeptide binding]; other site 398511000598 active site 398511000599 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 398511000600 23S rRNA interface [nucleotide binding]; other site 398511000601 L3 interface [polypeptide binding]; other site 398511000602 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 398511000603 Protein of unknown function (DUF2521); Region: DUF2521; pfam10730 398511000604 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 398511000605 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 398511000606 active site 398511000607 metal binding site [ion binding]; metal-binding site 398511000608 Domain of unknown function DUF59; Region: DUF59; pfam01883 398511000609 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 398511000610 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 398511000611 KinB-signalling pathway activation in sporulation; Region: KbaA; pfam14089 398511000612 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 398511000613 polysaccharide deacetylase family sporulation protein PdaB; Region: spore_ybaN_pdaB; TIGR02764 398511000614 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 398511000615 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511000616 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 398511000617 DNA binding residues [nucleotide binding] 398511000618 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 398511000619 Putative zinc-finger; Region: zf-HC2; pfam13490 398511000620 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 398511000621 Uncharacterized conserved protein [Function unknown]; Region: COG1624 398511000622 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 398511000623 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 398511000624 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 398511000625 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 398511000626 active site 398511000627 substrate binding site [chemical binding]; other site 398511000628 metal binding site [ion binding]; metal-binding site 398511000629 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 398511000630 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 398511000631 glutaminase active site [active] 398511000632 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 398511000633 dimer interface [polypeptide binding]; other site 398511000634 active site 398511000635 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 398511000636 dimer interface [polypeptide binding]; other site 398511000637 active site 398511000638 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 398511000639 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 398511000640 dimer interface [polypeptide binding]; other site 398511000641 active site 398511000642 heme binding site [chemical binding]; other site 398511000643 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 398511000644 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 398511000645 DHH family; Region: DHH; pfam01368 398511000646 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398511000647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 398511000648 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 398511000649 PAS domain S-box; Region: sensory_box; TIGR00229 398511000650 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 398511000651 putative active site [active] 398511000652 heme pocket [chemical binding]; other site 398511000653 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398511000654 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398511000655 metal binding site [ion binding]; metal-binding site 398511000656 active site 398511000657 I-site; other site 398511000658 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398511000659 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398511000660 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 398511000661 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398511000662 HTH-like domain; Region: HTH_21; pfam13276 398511000663 Integrase core domain; Region: rve; pfam00665 398511000664 Integrase core domain; Region: rve_2; pfam13333 398511000665 potential frameshift: common BLAST hit: gi|154686353|ref|YP_001421514.1| YojH 398511000666 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 398511000667 active site 398511000668 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 398511000669 Ferritin-like domain; Region: Ferritin; pfam00210 398511000670 ferroxidase diiron center [ion binding]; other site 398511000671 putative uracil/xanthine transporter; Provisional; Region: PRK11412 398511000672 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398511000673 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398511000674 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398511000675 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 398511000676 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398511000677 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 398511000678 ABC-ATPase subunit interface; other site 398511000679 dimer interface [polypeptide binding]; other site 398511000680 putative PBP binding regions; other site 398511000681 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 398511000682 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 398511000683 ABC-ATPase subunit interface; other site 398511000684 dimer interface [polypeptide binding]; other site 398511000685 putative PBP binding regions; other site 398511000686 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398511000687 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398511000688 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398511000689 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 398511000690 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 398511000691 intersubunit interface [polypeptide binding]; other site 398511000692 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 398511000693 IucA / IucC family; Region: IucA_IucC; pfam04183 398511000694 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 398511000695 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 398511000696 IucA / IucC family; Region: IucA_IucC; pfam04183 398511000697 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 398511000698 acyl-CoA synthetase; Validated; Region: PRK08308 398511000699 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398511000700 acyl-activating enzyme (AAE) consensus motif; other site 398511000701 AMP binding site [chemical binding]; other site 398511000702 active site 398511000703 CoA binding site [chemical binding]; other site 398511000704 acyl carrier protein; Provisional; Region: PRK07639 398511000705 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 398511000706 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 398511000707 amidohydrolase; Region: amidohydrolases; TIGR01891 398511000708 metal binding site [ion binding]; metal-binding site 398511000709 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 398511000710 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 398511000711 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 398511000712 Na binding site [ion binding]; other site 398511000713 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398511000714 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 398511000715 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 398511000716 catalytic residues [active] 398511000717 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398511000718 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 398511000719 substrate binding pocket [chemical binding]; other site 398511000720 membrane-bound complex binding site; other site 398511000721 hinge residues; other site 398511000722 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398511000723 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 398511000724 dimer interface [polypeptide binding]; other site 398511000725 conserved gate region; other site 398511000726 putative PBP binding loops; other site 398511000727 ABC-ATPase subunit interface; other site 398511000728 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398511000729 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398511000730 Walker A/P-loop; other site 398511000731 ATP binding site [chemical binding]; other site 398511000732 Q-loop/lid; other site 398511000733 ABC transporter signature motif; other site 398511000734 Walker B; other site 398511000735 D-loop; other site 398511000736 H-loop/switch region; other site 398511000737 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 398511000738 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 398511000739 Walker A/P-loop; other site 398511000740 ATP binding site [chemical binding]; other site 398511000741 Q-loop/lid; other site 398511000742 ABC transporter signature motif; other site 398511000743 Walker B; other site 398511000744 D-loop; other site 398511000745 H-loop/switch region; other site 398511000746 NIL domain; Region: NIL; pfam09383 398511000747 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 398511000748 dimer interface [polypeptide binding]; other site 398511000749 conserved gate region; other site 398511000750 ABC-ATPase subunit interface; other site 398511000751 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 398511000752 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398511000753 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398511000754 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 398511000755 mammalian-like beta-alanine synthase (beta-AS) and similar proteins (class 5 nitrilases); Region: ML_beta-AS_like; cd07568 398511000756 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 398511000757 putative active site [active] 398511000758 catalytic triad [active] 398511000759 multimer interface [polypeptide binding]; other site 398511000760 dimer interface [polypeptide binding]; other site 398511000761 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 398511000762 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 398511000763 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398511000764 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511000765 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 398511000766 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 398511000767 homodimer interface [polypeptide binding]; other site 398511000768 active site 398511000769 FMN binding site [chemical binding]; other site 398511000770 substrate binding site [chemical binding]; other site 398511000771 phenylhydantoinase; Validated; Region: PRK08323 398511000772 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 398511000773 tetramer interface [polypeptide binding]; other site 398511000774 active site 398511000775 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 398511000776 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 398511000777 Na binding site [ion binding]; other site 398511000778 substrate binding site [chemical binding]; other site 398511000779 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 398511000780 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 398511000781 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 398511000782 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 398511000783 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398511000784 tetrameric interface [polypeptide binding]; other site 398511000785 NAD binding site [chemical binding]; other site 398511000786 catalytic residues [active] 398511000787 aminotransferase; Validated; Region: PRK07678 398511000788 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 398511000789 inhibitor-cofactor binding pocket; inhibition site 398511000790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511000791 catalytic residue [active] 398511000792 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 398511000793 PAS domain; Region: PAS_9; pfam13426 398511000794 putative active site [active] 398511000795 heme pocket [chemical binding]; other site 398511000796 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 398511000797 PAS domain; Region: PAS_9; pfam13426 398511000798 putative active site [active] 398511000799 heme pocket [chemical binding]; other site 398511000800 PAS domain S-box; Region: sensory_box; TIGR00229 398511000801 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 398511000802 putative active site [active] 398511000803 heme pocket [chemical binding]; other site 398511000804 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 398511000805 dimer interface [polypeptide binding]; other site 398511000806 phosphorylation site [posttranslational modification] 398511000807 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 398511000808 ATP binding site [chemical binding]; other site 398511000809 Mg2+ binding site [ion binding]; other site 398511000810 G-X-G motif; other site 398511000811 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 398511000812 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 398511000813 active site 398511000814 catalytic residues [active] 398511000815 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398511000816 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 398511000817 non-specific DNA binding site [nucleotide binding]; other site 398511000818 salt bridge; other site 398511000819 sequence-specific DNA binding site [nucleotide binding]; other site 398511000820 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398511000821 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 398511000822 binding surface 398511000823 TPR motif; other site 398511000824 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398511000825 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398511000826 Predicted transcriptional regulators [Transcription]; Region: COG1733 398511000827 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 398511000828 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 398511000829 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398511000830 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 398511000831 Ligand Binding Site [chemical binding]; other site 398511000832 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 398511000833 MgtE intracellular N domain; Region: MgtE_N; pfam03448 398511000834 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 398511000835 Divalent cation transporter; Region: MgtE; pfam01769 398511000836 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398511000837 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 398511000838 Walker A/P-loop; other site 398511000839 ATP binding site [chemical binding]; other site 398511000840 Q-loop/lid; other site 398511000841 ABC transporter signature motif; other site 398511000842 Walker B; other site 398511000843 D-loop; other site 398511000844 H-loop/switch region; other site 398511000845 TOBE domain; Region: TOBE_2; pfam08402 398511000846 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398511000847 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 398511000848 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 398511000849 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 398511000850 dimer interface [polypeptide binding]; other site 398511000851 conserved gate region; other site 398511000852 putative PBP binding loops; other site 398511000853 ABC-ATPase subunit interface; other site 398511000854 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 398511000855 dimer interface [polypeptide binding]; other site 398511000856 conserved gate region; other site 398511000857 putative PBP binding loops; other site 398511000858 ABC-ATPase subunit interface; other site 398511000859 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4378 398511000860 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 398511000861 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 398511000862 metal binding site [ion binding]; metal-binding site 398511000863 Rhomboid family; Region: Rhomboid; pfam01694 398511000864 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 398511000865 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 398511000866 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 398511000867 PemK-like protein; Region: PemK; pfam02452 398511000868 Rsbr N terminal; Region: Rsbr_N; pfam08678 398511000869 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 398511000870 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 398511000871 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 398511000872 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 398511000873 ATP binding site [chemical binding]; other site 398511000874 Mg2+ binding site [ion binding]; other site 398511000875 G-X-G motif; other site 398511000876 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 398511000877 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 398511000878 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 398511000879 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 398511000880 anti sigma factor interaction site; other site 398511000881 regulatory phosphorylation site [posttranslational modification]; other site 398511000882 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 398511000883 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 398511000884 ATP binding site [chemical binding]; other site 398511000885 Mg2+ binding site [ion binding]; other site 398511000886 G-X-G motif; other site 398511000887 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 398511000888 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511000889 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398511000890 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 398511000891 DNA binding residues [nucleotide binding] 398511000892 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 398511000893 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 398511000894 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 398511000895 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 398511000896 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 398511000897 RNA binding site [nucleotide binding]; other site 398511000898 hypothetical protein; Provisional; Region: PRK04351 398511000899 SprT homologues; Region: SprT; cl01182 398511000900 potential protein location (hypothetical protein BpOF4_09230 [Bacillus pseudofirmus OF4]) that overlaps RNA (tRNA-G); potential protein location (hypothetical protein BpOF4_09230 [Bacillus pseudofirmus OF4]) that overlaps RNA (tRNA-I); potential protein location (hypothetical protein BpOF4_09230 [Bacillus pseudofirmus OF4]) that overlaps RNA (tRNA-P) 398511000901 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 398511000902 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 398511000903 homodimer interface [polypeptide binding]; other site 398511000904 substrate-cofactor binding pocket; other site 398511000905 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511000906 catalytic residue [active] 398511000907 thiamine monophosphate kinase; Provisional; Region: PRK05731 398511000908 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 398511000909 ATP binding site [chemical binding]; other site 398511000910 dimerization interface [polypeptide binding]; other site 398511000911 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 398511000912 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 398511000913 Glycoprotease family; Region: Peptidase_M22; pfam00814 398511000914 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 398511000915 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511000916 Coenzyme A binding pocket [chemical binding]; other site 398511000917 UGMP family protein; Validated; Region: PRK09604 398511000918 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 398511000919 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 398511000920 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 398511000921 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 398511000922 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398511000923 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398511000924 ABC transporter; Region: ABC_tran_2; pfam12848 398511000925 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398511000926 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 398511000927 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 398511000928 CoA binding domain; Region: CoA_binding; pfam02629 398511000929 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 398511000930 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 398511000931 Protein of unknown function (DUF3940); Region: DUF3940; pfam13076 398511000932 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 398511000933 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511000934 putative substrate translocation pore; other site 398511000935 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 398511000936 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 398511000937 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 398511000938 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 398511000939 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 398511000940 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 398511000941 fructuronate transporter; Provisional; Region: PRK10034; cl15264 398511000942 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 398511000943 Domain of unknown function (DUF4305); Region: DUF4305; pfam14146 398511000944 CAAX protease self-immunity; Region: Abi; pfam02517 398511000945 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 398511000946 oligomerisation interface [polypeptide binding]; other site 398511000947 mobile loop; other site 398511000948 roof hairpin; other site 398511000949 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 398511000950 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 398511000951 ring oligomerisation interface [polypeptide binding]; other site 398511000952 ATP/Mg binding site [chemical binding]; other site 398511000953 stacking interactions; other site 398511000954 hinge regions; other site 398511000955 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 398511000956 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398511000957 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511000958 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398511000959 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 398511000960 active site residue [active] 398511000961 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 398511000962 CPxP motif; other site 398511000963 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398511000964 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398511000965 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 398511000966 dimerization interface [polypeptide binding]; other site 398511000967 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398511000968 urease subunit alpha; Reviewed; Region: ureC; PRK13207 398511000969 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 398511000970 subunit interactions [polypeptide binding]; other site 398511000971 active site 398511000972 flap region; other site 398511000973 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 398511000974 gamma-beta subunit interface [polypeptide binding]; other site 398511000975 alpha-beta subunit interface [polypeptide binding]; other site 398511000976 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 398511000977 alpha-gamma subunit interface [polypeptide binding]; other site 398511000978 beta-gamma subunit interface [polypeptide binding]; other site 398511000979 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 398511000980 Citrate transporter; Region: CitMHS; pfam03600 398511000981 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 398511000982 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 398511000983 active site 398511000984 phosphorylation site [posttranslational modification] 398511000985 intermolecular recognition site; other site 398511000986 dimerization interface [polypeptide binding]; other site 398511000987 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 398511000988 PAS domain; Region: PAS; smart00091 398511000989 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 398511000990 ATP binding site [chemical binding]; other site 398511000991 Mg2+ binding site [ion binding]; other site 398511000992 G-X-G motif; other site 398511000993 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 398511000994 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 398511000995 active site 398511000996 Zn binding site [ion binding]; other site 398511000997 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 398511000998 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; cl17489 398511000999 type VII secretion protein EssB; Region: T7_EssB; TIGR03926 398511001000 WXG100 protein secretion system (Wss), protein YukC; Region: YukC; cl01868 398511001001 DNA transporter; Region: FtsK_SpoIIIE_N; pfam12538 398511001002 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 398511001003 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 398511001004 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 398511001005 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 398511001006 type VII secretion protein EsaA, N-terminal domain; Region: T7_esaA_Nterm; TIGR03929 398511001007 WXG100 protein secretion system (Wss), protein EssA; Region: EssA; cl11266 398511001008 LXG domain of WXG superfamily; Region: LXG; pfam04740 398511001009 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 398511001010 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 398511001011 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 398511001012 active site residue [active] 398511001013 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 398511001014 active site residue [active] 398511001015 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398511001016 MarR family; Region: MarR; pfam01047 398511001017 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 398511001018 TrkA-C domain; Region: TrkA_C; pfam02080 398511001019 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 398511001020 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 398511001021 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 398511001022 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 398511001023 synthetase active site [active] 398511001024 NTP binding site [chemical binding]; other site 398511001025 metal binding site [ion binding]; metal-binding site 398511001026 hypothetical protein; Provisional; Region: PRK08236 398511001027 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 398511001028 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 398511001029 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cd00455 398511001030 active site 398511001031 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398511001032 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398511001033 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 398511001034 Walker A/P-loop; other site 398511001035 ATP binding site [chemical binding]; other site 398511001036 Q-loop/lid; other site 398511001037 ABC transporter signature motif; other site 398511001038 Walker B; other site 398511001039 D-loop; other site 398511001040 H-loop/switch region; other site 398511001041 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398511001042 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 398511001043 S-adenosylmethionine binding site [chemical binding]; other site 398511001044 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 398511001045 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 398511001046 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398511001047 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 398511001048 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511001049 Coenzyme A binding pocket [chemical binding]; other site 398511001050 MoxR-like ATPases [General function prediction only]; Region: COG0714 398511001051 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 398511001052 Walker A motif; other site 398511001053 ATP binding site [chemical binding]; other site 398511001054 Walker B motif; other site 398511001055 arginine finger; other site 398511001056 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 398511001057 Protein of unknown function DUF58; Region: DUF58; pfam01882 398511001058 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398511001059 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 398511001060 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 398511001061 GMP synthase; Reviewed; Region: guaA; PRK00074 398511001062 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 398511001063 AMP/PPi binding site [chemical binding]; other site 398511001064 candidate oxyanion hole; other site 398511001065 catalytic triad [active] 398511001066 potential glutamine specificity residues [chemical binding]; other site 398511001067 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 398511001068 ATP Binding subdomain [chemical binding]; other site 398511001069 Ligand Binding sites [chemical binding]; other site 398511001070 Dimerization subdomain; other site 398511001071 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 398511001072 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 398511001073 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 398511001074 tetramer interface [polypeptide binding]; other site 398511001075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511001076 catalytic residue [active] 398511001077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 398511001078 MOSC domain; Region: MOSC; pfam03473 398511001079 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 398511001080 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 398511001081 malonyl-CoA binding site [chemical binding]; other site 398511001082 dimer interface [polypeptide binding]; other site 398511001083 active site 398511001084 product binding site; other site 398511001085 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 398511001086 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4843 398511001087 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 398511001088 NETI protein; Region: NETI; pfam14044 398511001089 AIR carboxylase; Region: AIRC; pfam00731 398511001090 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 398511001091 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 398511001092 NAD binding site [chemical binding]; other site 398511001093 ATP-grasp domain; Region: ATP-grasp; pfam02222 398511001094 adenylosuccinate lyase; Provisional; Region: PRK07492 398511001095 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 398511001096 tetramer interface [polypeptide binding]; other site 398511001097 active site 398511001098 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 398511001099 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 398511001100 ATP binding site [chemical binding]; other site 398511001101 active site 398511001102 substrate binding site [chemical binding]; other site 398511001103 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 398511001104 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 398511001105 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 398511001106 putative active site [active] 398511001107 catalytic triad [active] 398511001108 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 398511001109 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 398511001110 dimerization interface [polypeptide binding]; other site 398511001111 ATP binding site [chemical binding]; other site 398511001112 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 398511001113 dimerization interface [polypeptide binding]; other site 398511001114 ATP binding site [chemical binding]; other site 398511001115 amidophosphoribosyltransferase; Provisional; Region: PRK07631 398511001116 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 398511001117 active site 398511001118 tetramer interface [polypeptide binding]; other site 398511001119 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398511001120 active site 398511001121 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 398511001122 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 398511001123 dimerization interface [polypeptide binding]; other site 398511001124 putative ATP binding site [chemical binding]; other site 398511001125 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 398511001126 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 398511001127 active site 398511001128 substrate binding site [chemical binding]; other site 398511001129 cosubstrate binding site; other site 398511001130 catalytic site [active] 398511001131 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 398511001132 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 398511001133 purine monophosphate binding site [chemical binding]; other site 398511001134 dimer interface [polypeptide binding]; other site 398511001135 putative catalytic residues [active] 398511001136 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 398511001137 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 398511001138 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 398511001139 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 398511001140 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 398511001141 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 398511001142 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 398511001143 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 398511001144 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 398511001145 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 398511001146 active site 398511001147 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 398511001148 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 398511001149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4496 398511001150 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 398511001151 Vitamin K epoxide reductase (VKOR) family; Region: VKOR; cd10546 398511001152 putative active site [active] 398511001153 redox center [active] 398511001154 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 398511001155 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 398511001156 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 398511001157 active site 398511001158 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 398511001159 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398511001160 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398511001161 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 398511001162 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 398511001163 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 398511001164 allantoate amidohydrolase; Reviewed; Region: PRK09290 398511001165 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398511001166 active site 398511001167 metal binding site [ion binding]; metal-binding site 398511001168 dimer interface [polypeptide binding]; other site 398511001169 alanine racemase; Reviewed; Region: alr; PRK00053 398511001170 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 398511001171 active site 398511001172 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398511001173 dimer interface [polypeptide binding]; other site 398511001174 substrate binding site [chemical binding]; other site 398511001175 catalytic residues [active] 398511001176 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 398511001177 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 398511001178 hexamer interface [polypeptide binding]; other site 398511001179 ligand binding site [chemical binding]; other site 398511001180 putative active site [active] 398511001181 NAD(P) binding site [chemical binding]; other site 398511001182 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 398511001183 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 398511001184 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 398511001185 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 398511001186 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 398511001187 dimerization interface [polypeptide binding]; other site 398511001188 putative DNA binding site [nucleotide binding]; other site 398511001189 putative Zn2+ binding site [ion binding]; other site 398511001190 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 398511001191 hypothetical protein; Provisional; Region: PRK00967 398511001192 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 398511001193 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398511001194 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398511001195 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398511001196 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 398511001197 Class I ribonucleotide reductase; Region: RNR_I; cd01679 398511001198 active site 398511001199 dimer interface [polypeptide binding]; other site 398511001200 catalytic residues [active] 398511001201 effector binding site; other site 398511001202 R2 peptide binding site; other site 398511001203 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 398511001204 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 398511001205 dimer interface [polypeptide binding]; other site 398511001206 putative radical transfer pathway; other site 398511001207 diiron center [ion binding]; other site 398511001208 tyrosyl radical; other site 398511001209 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 398511001210 Sodium Bile acid symporter family; Region: SBF; pfam01758 398511001211 PcrB family; Region: PcrB; pfam01884 398511001212 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 398511001213 substrate binding site [chemical binding]; other site 398511001214 putative active site [active] 398511001215 dimer interface [polypeptide binding]; other site 398511001216 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 398511001217 Part of AAA domain; Region: AAA_19; pfam13245 398511001218 AAA domain; Region: AAA_14; pfam13173 398511001219 Family description; Region: UvrD_C_2; pfam13538 398511001220 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 398511001221 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 398511001222 nucleotide binding pocket [chemical binding]; other site 398511001223 K-X-D-G motif; other site 398511001224 catalytic site [active] 398511001225 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 398511001226 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 398511001227 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 398511001228 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 398511001229 Dimer interface [polypeptide binding]; other site 398511001230 Protein involved in sex pheromone biosynthesis [General function prediction only]; Region: CamS; COG4851 398511001231 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 398511001232 putative dimer interface [polypeptide binding]; other site 398511001233 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 398511001234 putative dimer interface [polypeptide binding]; other site 398511001235 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 398511001236 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 398511001237 ligand binding site [chemical binding]; other site 398511001238 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 398511001239 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398511001240 Walker A/P-loop; other site 398511001241 ATP binding site [chemical binding]; other site 398511001242 Q-loop/lid; other site 398511001243 ABC transporter signature motif; other site 398511001244 Walker B; other site 398511001245 D-loop; other site 398511001246 H-loop/switch region; other site 398511001247 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398511001248 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398511001249 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 398511001250 TM-ABC transporter signature motif; other site 398511001251 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 398511001252 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398511001253 TM-ABC transporter signature motif; other site 398511001254 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398511001255 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 398511001256 Na binding site [ion binding]; other site 398511001257 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 398511001258 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 398511001259 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 398511001260 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 398511001261 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 398511001262 GatB domain; Region: GatB_Yqey; smart00845 398511001263 putative lipid kinase; Reviewed; Region: PRK13337 398511001264 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 398511001265 TRAM domain; Region: TRAM; cl01282 398511001266 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 398511001267 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 398511001268 S-adenosylmethionine binding site [chemical binding]; other site 398511001269 Domain of unknown function DUF87; Region: DUF87; pfam01935 398511001270 HerA helicase [Replication, recombination, and repair]; Region: COG0433 398511001271 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 398511001272 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 398511001273 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 398511001274 FMN binding site [chemical binding]; other site 398511001275 active site 398511001276 catalytic residues [active] 398511001277 substrate binding site [chemical binding]; other site 398511001278 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 398511001279 catalytic core [active] 398511001280 FtsX-like permease family; Region: FtsX; pfam02687 398511001281 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398511001282 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398511001283 Walker A/P-loop; other site 398511001284 ATP binding site [chemical binding]; other site 398511001285 Q-loop/lid; other site 398511001286 ABC transporter signature motif; other site 398511001287 Walker B; other site 398511001288 D-loop; other site 398511001289 H-loop/switch region; other site 398511001290 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398511001291 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 398511001292 ATP binding site [chemical binding]; other site 398511001293 Mg2+ binding site [ion binding]; other site 398511001294 G-X-G motif; other site 398511001295 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511001296 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 398511001297 active site 398511001298 phosphorylation site [posttranslational modification] 398511001299 intermolecular recognition site; other site 398511001300 dimerization interface [polypeptide binding]; other site 398511001301 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 398511001302 DNA binding site [nucleotide binding] 398511001303 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398511001304 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 398511001305 active site 398511001306 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 398511001307 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398511001308 active site 398511001309 HIGH motif; other site 398511001310 nucleotide binding site [chemical binding]; other site 398511001311 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 398511001312 KMSKS motif; other site 398511001313 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 398511001314 Uncharacterized conserved protein [Function unknown]; Region: COG0397 398511001315 hypothetical protein; Validated; Region: PRK00029 398511001316 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 398511001317 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 398511001318 putative di-iron ligands [ion binding]; other site 398511001319 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398511001320 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 398511001321 Histidine kinase; Region: HisKA_3; pfam07730 398511001322 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 398511001323 ATP binding site [chemical binding]; other site 398511001324 Mg2+ binding site [ion binding]; other site 398511001325 G-X-G motif; other site 398511001326 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398511001327 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 398511001328 active site 398511001329 phosphorylation site [posttranslational modification] 398511001330 intermolecular recognition site; other site 398511001331 dimerization interface [polypeptide binding]; other site 398511001332 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 398511001333 DNA binding residues [nucleotide binding] 398511001334 dimerization interface [polypeptide binding]; other site 398511001335 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398511001336 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 398511001337 Sulfatase; Region: Sulfatase; pfam00884 398511001338 Predicted membrane protein (DUF2243); Region: DUF2243; pfam10002 398511001339 Predicted membrane protein [Function unknown]; Region: COG3336 398511001340 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511001341 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 398511001342 active site 398511001343 phosphorylation site [posttranslational modification] 398511001344 intermolecular recognition site; other site 398511001345 dimerization interface [polypeptide binding]; other site 398511001346 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 398511001347 DNA binding site [nucleotide binding] 398511001348 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398511001349 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 398511001350 dimerization interface [polypeptide binding]; other site 398511001351 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 398511001352 dimer interface [polypeptide binding]; other site 398511001353 phosphorylation site [posttranslational modification] 398511001354 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 398511001355 ATP binding site [chemical binding]; other site 398511001356 Mg2+ binding site [ion binding]; other site 398511001357 G-X-G motif; other site 398511001358 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 398511001359 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 398511001360 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398511001361 MMPL family; Region: MMPL; pfam03176 398511001362 Protein export membrane protein; Region: SecD_SecF; cl14618 398511001363 MMPL family; Region: MMPL; pfam03176 398511001364 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 398511001365 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 398511001366 Na binding site [ion binding]; other site 398511001367 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398511001368 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 398511001369 potential frameshift: common BLAST hit: gi|172058851|ref|YP_001815311.1| NADH:flavin oxidoreductase/NADH oxidase 398511001370 hypothetical protein; Provisional; Region: PRK06851 398511001371 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 398511001372 Walker A motif; other site 398511001373 ATP binding site [chemical binding]; other site 398511001374 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511001375 Walker A/P-loop; other site 398511001376 ATP binding site [chemical binding]; other site 398511001377 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398511001378 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398511001379 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 398511001380 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 398511001381 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 398511001382 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398511001383 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398511001384 Bacterial transcriptional regulator; Region: IclR; pfam01614 398511001385 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 398511001386 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 398511001387 putative active site [active] 398511001388 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398511001389 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511001390 Coenzyme A binding pocket [chemical binding]; other site 398511001391 LXG domain of WXG superfamily; Region: LXG; pfam04740 398511001392 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 398511001393 Glutaminase; Region: Glutaminase; cl00907 398511001394 PAS domain; Region: PAS_9; pfam13426 398511001395 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 398511001396 putative active site [active] 398511001397 heme pocket [chemical binding]; other site 398511001398 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398511001399 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 398511001400 Walker A motif; other site 398511001401 ATP binding site [chemical binding]; other site 398511001402 Walker B motif; other site 398511001403 arginine finger; other site 398511001404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 398511001405 Nucleoside recognition; Region: Gate; pfam07670 398511001406 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 398511001407 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 398511001408 inhibitor-cofactor binding pocket; inhibition site 398511001409 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511001410 catalytic residue [active] 398511001411 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398511001412 dimer interface [polypeptide binding]; other site 398511001413 putative CheW interface [polypeptide binding]; other site 398511001414 allantoate amidohydrolase; Reviewed; Region: PRK09290 398511001415 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398511001416 active site 398511001417 metal binding site [ion binding]; metal-binding site 398511001418 dimer interface [polypeptide binding]; other site 398511001419 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 398511001420 Na binding site [ion binding]; other site 398511001421 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 398511001422 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 398511001423 metal binding site [ion binding]; metal-binding site 398511001424 dimer interface [polypeptide binding]; other site 398511001425 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 398511001426 Na2 binding site [ion binding]; other site 398511001427 putative substrate binding site 1 [chemical binding]; other site 398511001428 Na binding site 1 [ion binding]; other site 398511001429 putative substrate binding site 2 [chemical binding]; other site 398511001430 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 398511001431 Putative cyclase; Region: Cyclase; cl00814 398511001432 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 398511001433 kynureninase; Region: kynureninase; TIGR01814 398511001434 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398511001435 catalytic residue [active] 398511001436 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398511001437 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398511001438 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 398511001439 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398511001440 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 398511001441 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 398511001442 putative active site [active] 398511001443 Zn binding site [ion binding]; other site 398511001444 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398511001445 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398511001446 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511001447 Walker A/P-loop; other site 398511001448 ATP binding site [chemical binding]; other site 398511001449 Q-loop/lid; other site 398511001450 ABC transporter signature motif; other site 398511001451 Walker B; other site 398511001452 D-loop; other site 398511001453 H-loop/switch region; other site 398511001454 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398511001455 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398511001456 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 398511001457 Walker A/P-loop; other site 398511001458 ATP binding site [chemical binding]; other site 398511001459 Q-loop/lid; other site 398511001460 ABC transporter signature motif; other site 398511001461 Walker B; other site 398511001462 D-loop; other site 398511001463 H-loop/switch region; other site 398511001464 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 398511001465 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398511001466 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 398511001467 dimer interface [polypeptide binding]; other site 398511001468 phosphorylation site [posttranslational modification] 398511001469 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 398511001470 ATP binding site [chemical binding]; other site 398511001471 Mg2+ binding site [ion binding]; other site 398511001472 G-X-G motif; other site 398511001473 Protein of unknown function (DUF779); Region: DUF779; pfam05610 398511001474 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 398511001475 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398511001476 NAD(P) binding site [chemical binding]; other site 398511001477 catalytic residues [active] 398511001478 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398511001479 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 398511001480 RNA binding surface [nucleotide binding]; other site 398511001481 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 398511001482 probable active site [active] 398511001483 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 398511001484 amphipathic channel; other site 398511001485 Asn-Pro-Ala signature motifs; other site 398511001486 glycerol kinase; Provisional; Region: glpK; PRK00047 398511001487 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 398511001488 N- and C-terminal domain interface [polypeptide binding]; other site 398511001489 active site 398511001490 MgATP binding site [chemical binding]; other site 398511001491 catalytic site [active] 398511001492 metal binding site [ion binding]; metal-binding site 398511001493 glycerol binding site [chemical binding]; other site 398511001494 homotetramer interface [polypeptide binding]; other site 398511001495 homodimer interface [polypeptide binding]; other site 398511001496 FBP binding site [chemical binding]; other site 398511001497 protein IIAGlc interface [polypeptide binding]; other site 398511001498 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 398511001499 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398511001500 EamA-like transporter family; Region: EamA; pfam00892 398511001501 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 398511001502 amino acid carrier protein; Region: agcS; TIGR00835 398511001503 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 398511001504 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 398511001505 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 398511001506 active site turn [active] 398511001507 phosphorylation site [posttranslational modification] 398511001508 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 398511001509 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 398511001510 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 398511001511 Ca binding site [ion binding]; other site 398511001512 active site 398511001513 catalytic site [active] 398511001514 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 398511001515 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398511001516 DNA-binding site [nucleotide binding]; DNA binding site 398511001517 UTRA domain; Region: UTRA; pfam07702 398511001518 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 398511001519 catalytic residues [active] 398511001520 dimer interface [polypeptide binding]; other site 398511001521 Nitric oxide synthase (NOS) prokaryotic oxygenase domain. NOS produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N...; Region: NOS_oxygenase_prok; cd00794 398511001522 active site 398511001523 dimer interface [polypeptide binding]; other site 398511001524 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 398511001525 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511001526 Walker A/P-loop; other site 398511001527 ATP binding site [chemical binding]; other site 398511001528 ABC transporter signature motif; other site 398511001529 Walker B; other site 398511001530 D-loop; other site 398511001531 H-loop/switch region; other site 398511001532 ABC transporter; Region: ABC_tran_2; pfam12848 398511001533 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398511001534 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 398511001535 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398511001536 putative active site [active] 398511001537 heme pocket [chemical binding]; other site 398511001538 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398511001539 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398511001540 metal binding site [ion binding]; metal-binding site 398511001541 active site 398511001542 I-site; other site 398511001543 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 398511001544 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 398511001545 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 398511001546 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 398511001547 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 398511001548 putative substrate binding site [chemical binding]; other site 398511001549 putative ATP binding site [chemical binding]; other site 398511001550 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 398511001551 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 398511001552 active site 398511001553 phosphorylation site [posttranslational modification] 398511001554 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 398511001555 active site 398511001556 P-loop; other site 398511001557 phosphorylation site [posttranslational modification] 398511001558 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 398511001559 amidase; Provisional; Region: PRK06828 398511001560 Amidase; Region: Amidase; pfam01425 398511001561 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 398511001562 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 398511001563 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 398511001564 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 398511001565 NAD(P) binding site [chemical binding]; other site 398511001566 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 398511001567 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 398511001568 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 398511001569 putative active site [active] 398511001570 catalytic triad [active] 398511001571 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 398511001572 PA/protease domain interface [polypeptide binding]; other site 398511001573 putative integrin binding motif; other site 398511001574 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 398511001575 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 398511001576 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 398511001577 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 398511001578 Protein of unknown function; Region: DUF3658; pfam12395 398511001579 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 398511001580 ABC1 family; Region: ABC1; cl17513 398511001581 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 398511001582 active site 398511001583 ATP binding site [chemical binding]; other site 398511001584 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398511001585 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 398511001586 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398511001587 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 398511001588 dimer interface [polypeptide binding]; other site 398511001589 substrate binding site [chemical binding]; other site 398511001590 ATP binding site [chemical binding]; other site 398511001591 rod-share determining protein MreBH; Provisional; Region: PRK13929 398511001592 MreB and similar proteins; Region: MreB_like; cd10225 398511001593 nucleotide binding site [chemical binding]; other site 398511001594 Mg binding site [ion binding]; other site 398511001595 putative protofilament interaction site [polypeptide binding]; other site 398511001596 RodZ interaction site [polypeptide binding]; other site 398511001597 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 398511001598 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 398511001599 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 398511001600 active site turn [active] 398511001601 phosphorylation site [posttranslational modification] 398511001602 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 398511001603 HPr interaction site; other site 398511001604 glycerol kinase (GK) interaction site [polypeptide binding]; other site 398511001605 active site 398511001606 phosphorylation site [posttranslational modification] 398511001607 transcriptional antiterminator BglG; Provisional; Region: PRK09772 398511001608 CAT RNA binding domain; Region: CAT_RBD; smart01061 398511001609 PRD domain; Region: PRD; pfam00874 398511001610 PRD domain; Region: PRD; pfam00874 398511001611 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 398511001612 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 398511001613 Na2 binding site [ion binding]; other site 398511001614 putative substrate binding site 1 [chemical binding]; other site 398511001615 Na binding site 1 [ion binding]; other site 398511001616 putative substrate binding site 2 [chemical binding]; other site 398511001617 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 398511001618 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 398511001619 NodB motif; other site 398511001620 putative active site [active] 398511001621 putative catalytic site [active] 398511001622 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 398511001623 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 398511001624 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398511001625 catalytic residue [active] 398511001626 L-aspartate oxidase; Provisional; Region: PRK06175 398511001627 L-aspartate oxidase; Provisional; Region: PRK08071 398511001628 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 398511001629 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK08072 398511001630 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 398511001631 dimerization interface [polypeptide binding]; other site 398511001632 active site 398511001633 quinolinate synthetase; Provisional; Region: PRK09375 398511001634 multidrug efflux protein; Reviewed; Region: PRK01766 398511001635 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 398511001636 cation binding site [ion binding]; other site 398511001637 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 398511001638 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 398511001639 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 398511001640 active site 398511001641 RNA/DNA hybrid binding site [nucleotide binding]; other site 398511001642 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 398511001643 NAD(P) binding site [chemical binding]; other site 398511001644 catalytic residues [active] 398511001645 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 398511001646 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398511001647 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 398511001648 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 398511001649 tetramer interface [polypeptide binding]; other site 398511001650 heme binding pocket [chemical binding]; other site 398511001651 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 398511001652 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 398511001653 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 398511001654 Spore germination protein; Region: Spore_permease; cl17796 398511001655 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398511001656 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398511001657 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 398511001658 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398511001659 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398511001660 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 398511001661 putative DNA binding site [nucleotide binding]; other site 398511001662 putative Zn2+ binding site [ion binding]; other site 398511001663 AsnC family; Region: AsnC_trans_reg; pfam01037 398511001664 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 398511001665 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 398511001666 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 398511001667 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 398511001668 active site 398511001669 Zn binding site [ion binding]; other site 398511001670 CHASE3 domain; Region: CHASE3; cl05000 398511001671 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398511001672 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 398511001673 dimerization interface [polypeptide binding]; other site 398511001674 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398511001675 dimer interface [polypeptide binding]; other site 398511001676 putative CheW interface [polypeptide binding]; other site 398511001677 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 398511001678 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 398511001679 Protein of unknown function (DUF3901); Region: DUF3901; pfam13040 398511001680 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 398511001681 dinuclear metal binding motif [ion binding]; other site 398511001682 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398511001683 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 398511001684 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 398511001685 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511001686 putative substrate translocation pore; other site 398511001687 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 398511001688 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 398511001689 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 398511001690 Predicted membrane protein [Function unknown]; Region: COG2364 398511001691 Transposase domain (DUF772); Region: DUF772; pfam05598 398511001692 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398511001693 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 398511001694 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 398511001695 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK07634 398511001696 YfkD-like protein; Region: YfkD; pfam14167 398511001697 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 398511001698 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 398511001699 FeS/SAM binding site; other site 398511001700 YfkB-like domain; Region: YfkB; pfam08756 398511001701 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 398511001702 catalytic core [active] 398511001703 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 398511001704 DNA-binding site [nucleotide binding]; DNA binding site 398511001705 RNA-binding motif; other site 398511001706 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 398511001707 Fumarase C-terminus; Region: Fumerase_C; pfam05683 398511001708 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 398511001709 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 398511001710 NodB motif; other site 398511001711 active site 398511001712 catalytic site [active] 398511001713 Cd binding site [ion binding]; other site 398511001714 TRAM domain; Region: TRAM; pfam01938 398511001715 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 398511001716 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 398511001717 S-adenosylmethionine binding site [chemical binding]; other site 398511001718 Penicillin amidase; Region: Penicil_amidase; pfam01804 398511001719 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 398511001720 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 398511001721 active site 398511001722 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 398511001723 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 398511001724 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398511001725 active site 398511001726 catalytic tetrad [active] 398511001727 short chain dehydrogenase; Provisional; Region: PRK06924 398511001728 sepiapterin reductase (SPR)-like, classical (c) SDRs; Region: SPR-like_SDR_c; cd05367 398511001729 NADP binding site [chemical binding]; other site 398511001730 homodimer interface [polypeptide binding]; other site 398511001731 active site 398511001732 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 398511001733 putative metal binding site [ion binding]; other site 398511001734 putative dimer interface [polypeptide binding]; other site 398511001735 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398511001736 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398511001737 Walker A/P-loop; other site 398511001738 ATP binding site [chemical binding]; other site 398511001739 Q-loop/lid; other site 398511001740 ABC transporter signature motif; other site 398511001741 Walker B; other site 398511001742 D-loop; other site 398511001743 H-loop/switch region; other site 398511001744 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 398511001745 dimer interface [polypeptide binding]; other site 398511001746 conserved gate region; other site 398511001747 putative PBP binding loops; other site 398511001748 ABC-ATPase subunit interface; other site 398511001749 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398511001750 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 398511001751 substrate binding pocket [chemical binding]; other site 398511001752 membrane-bound complex binding site; other site 398511001753 hinge residues; other site 398511001754 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 398511001755 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 398511001756 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 398511001757 inhibitor-cofactor binding pocket; inhibition site 398511001758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511001759 catalytic residue [active] 398511001760 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511001761 Coenzyme A binding pocket [chemical binding]; other site 398511001762 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398511001763 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 398511001764 TIGR01777 family protein; Region: yfcH 398511001765 putative NAD(P) binding site [chemical binding]; other site 398511001766 putative active site [active] 398511001767 recombination regulator RecX; Provisional; Region: recX; PRK14135 398511001768 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 398511001769 YpzG-like protein; Region: YpzG; pfam14139 398511001770 Small acid-soluble spore protein K family; Region: SspK; cl11509 398511001771 WVELL protein; Region: WVELL; pfam14043 398511001772 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 398511001773 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 398511001774 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398511001775 minor groove reading motif; other site 398511001776 helix-hairpin-helix signature motif; other site 398511001777 substrate binding pocket [chemical binding]; other site 398511001778 active site 398511001779 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 398511001780 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 398511001781 DNA binding and oxoG recognition site [nucleotide binding] 398511001782 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398511001783 classical (c) SDRs; Region: SDR_c; cd05233 398511001784 NAD(P) binding site [chemical binding]; other site 398511001785 active site 398511001786 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398511001787 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 398511001788 NAD(P) binding site [chemical binding]; other site 398511001789 aspartate aminotransferase; Provisional; Region: PRK07681 398511001790 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 398511001791 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511001792 homodimer interface [polypeptide binding]; other site 398511001793 catalytic residue [active] 398511001794 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 398511001795 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 398511001796 putative NAD(P) binding site [chemical binding]; other site 398511001797 active site 398511001798 hypothetical protein; Provisional; Region: PRK13662 398511001799 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398511001800 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398511001801 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 398511001802 Walker A/P-loop; other site 398511001803 ATP binding site [chemical binding]; other site 398511001804 Q-loop/lid; other site 398511001805 ABC transporter signature motif; other site 398511001806 Walker B; other site 398511001807 D-loop; other site 398511001808 H-loop/switch region; other site 398511001809 Predicted membrane protein [Function unknown]; Region: COG4129 398511001810 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 398511001811 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 398511001812 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 398511001813 inhibitor-cofactor binding pocket; inhibition site 398511001814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511001815 catalytic residue [active] 398511001816 Sporulation inhibitor A; Region: Sda; pfam08970 398511001817 Ion channel; Region: Ion_trans_2; pfam07885 398511001818 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398511001819 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 398511001820 catalytic triad [active] 398511001821 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 398511001822 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398511001823 NAD binding site [chemical binding]; other site 398511001824 ligand binding site [chemical binding]; other site 398511001825 catalytic site [active] 398511001826 Protein of unknown function (DUF970); Region: DUF970; cl17525 398511001827 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398511001828 metal binding site 2 [ion binding]; metal-binding site 398511001829 putative DNA binding helix; other site 398511001830 metal binding site 1 [ion binding]; metal-binding site 398511001831 dimer interface [polypeptide binding]; other site 398511001832 structural Zn2+ binding site [ion binding]; other site 398511001833 Protein of unknown function (DUF2614); Region: DUF2614; pfam11023 398511001834 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 398511001835 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398511001836 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 398511001837 active site 398511001838 metal binding site [ion binding]; metal-binding site 398511001839 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 398511001840 Radical SAM superfamily; Region: Radical_SAM; pfam04055 398511001841 FeS/SAM binding site; other site 398511001842 Domain of unknown function (DUF202); Region: DUF202; pfam02656 398511001843 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 398511001844 active site residue [active] 398511001845 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 398511001846 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 398511001847 active site 398511001848 NodB motif; other site 398511001849 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 398511001850 active site residue [active] 398511001851 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398511001852 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398511001853 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 398511001854 putative active site [active] 398511001855 heme pocket [chemical binding]; other site 398511001856 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 398511001857 dimer interface [polypeptide binding]; other site 398511001858 phosphorylation site [posttranslational modification] 398511001859 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 398511001860 ATP binding site [chemical binding]; other site 398511001861 Mg2+ binding site [ion binding]; other site 398511001862 G-X-G motif; other site 398511001863 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 398511001864 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 398511001865 active site 398511001866 metal binding site [ion binding]; metal-binding site 398511001867 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 398511001868 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 398511001869 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 398511001870 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 398511001871 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 398511001872 succinic semialdehyde dehydrogenase; Region: PLN02278 398511001873 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398511001874 tetramerization interface [polypeptide binding]; other site 398511001875 NAD(P) binding site [chemical binding]; other site 398511001876 catalytic residues [active] 398511001877 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 398511001878 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 398511001879 dimerization interface [polypeptide binding]; other site 398511001880 DPS ferroxidase diiron center [ion binding]; other site 398511001881 ion pore; other site 398511001882 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 398511001883 B3/4 domain; Region: B3_4; pfam03483 398511001884 epoxyqueuosine reductase; Region: TIGR00276 398511001885 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 398511001886 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 398511001887 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 398511001888 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 398511001889 DNA binding site [nucleotide binding] 398511001890 active site 398511001891 Putative amidase domain; Region: Amidase_6; pfam12671 398511001892 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 398511001893 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 398511001894 Transglycosylase; Region: Transgly; pfam00912 398511001895 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 398511001896 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 398511001897 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 398511001898 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 398511001899 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 398511001900 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398511001901 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 398511001902 active site 398511001903 catalytic tetrad [active] 398511001904 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 398511001905 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 398511001906 siderophore binding site; other site 398511001907 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398511001908 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 398511001909 ABC-ATPase subunit interface; other site 398511001910 dimer interface [polypeptide binding]; other site 398511001911 putative PBP binding regions; other site 398511001912 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 398511001913 ABC-ATPase subunit interface; other site 398511001914 dimer interface [polypeptide binding]; other site 398511001915 putative PBP binding regions; other site 398511001916 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398511001917 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398511001918 Walker A/P-loop; other site 398511001919 ATP binding site [chemical binding]; other site 398511001920 Q-loop/lid; other site 398511001921 ABC transporter signature motif; other site 398511001922 Walker B; other site 398511001923 D-loop; other site 398511001924 H-loop/switch region; other site 398511001925 Uncharacterized Fe-S protein [General function prediction only]; Region: FhuF; COG4114 398511001926 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 398511001927 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398511001928 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511001929 Coenzyme A binding pocket [chemical binding]; other site 398511001930 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398511001931 Predicted membrane protein [Function unknown]; Region: COG2311 398511001932 Protein of unknown function (DUF418); Region: DUF418; pfam04235 398511001933 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 398511001934 dimer interface [polypeptide binding]; other site 398511001935 FMN binding site [chemical binding]; other site 398511001936 NADPH bind site [chemical binding]; other site 398511001937 transaminase; Reviewed; Region: PRK08068 398511001938 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 398511001939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511001940 homodimer interface [polypeptide binding]; other site 398511001941 catalytic residue [active] 398511001942 Mn-containing catalase [Inorganic ion transport and metabolism]; Region: COG3546 398511001943 dinuclear metal binding motif [ion binding]; other site 398511001944 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 398511001945 tartrate dehydrogenase; Provisional; Region: PRK08194 398511001946 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 398511001947 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398511001948 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 398511001949 S-adenosylmethionine binding site [chemical binding]; other site 398511001950 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 398511001951 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 398511001952 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 398511001953 fructuronate transporter; Provisional; Region: PRK10034; cl15264 398511001954 YfhD-like protein; Region: YfhD; pfam14151 398511001955 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 398511001956 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 398511001957 active site 398511001958 catalytic site [active] 398511001959 metal binding site [ion binding]; metal-binding site 398511001960 dimer interface [polypeptide binding]; other site 398511001961 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 398511001962 dimerization interface [polypeptide binding]; other site 398511001963 putative DNA binding site [nucleotide binding]; other site 398511001964 putative Zn2+ binding site [ion binding]; other site 398511001965 H+ Antiporter protein; Region: 2A0121; TIGR00900 398511001966 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 398511001967 homodimer interface [polypeptide binding]; other site 398511001968 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 398511001969 active site pocket [active] 398511001970 glycogen synthase; Provisional; Region: glgA; PRK00654 398511001971 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 398511001972 ADP-binding pocket [chemical binding]; other site 398511001973 homodimer interface [polypeptide binding]; other site 398511001974 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 398511001975 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 398511001976 ligand binding site; other site 398511001977 oligomer interface; other site 398511001978 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 398511001979 dimer interface [polypeptide binding]; other site 398511001980 N-terminal domain interface [polypeptide binding]; other site 398511001981 sulfate 1 binding site; other site 398511001982 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 398511001983 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 398511001984 ligand binding site; other site 398511001985 oligomer interface; other site 398511001986 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 398511001987 dimer interface [polypeptide binding]; other site 398511001988 N-terminal domain interface [polypeptide binding]; other site 398511001989 sulfate 1 binding site; other site 398511001990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 398511001991 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 398511001992 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 398511001993 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 398511001994 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398511001995 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511001996 Coenzyme A binding pocket [chemical binding]; other site 398511001997 Predicted amidohydrolase [General function prediction only]; Region: COG0388 398511001998 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 398511001999 putative active site [active] 398511002000 catalytic triad [active] 398511002001 putative dimer interface [polypeptide binding]; other site 398511002002 FixH; Region: FixH; pfam05751 398511002003 YtkA-like; Region: YtkA; pfam13115 398511002004 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 398511002005 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 398511002006 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 398511002007 active site 398511002008 substrate binding site [chemical binding]; other site 398511002009 metal binding site [ion binding]; metal-binding site 398511002010 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 398511002011 putative dimer interface [polypeptide binding]; other site 398511002012 catalytic triad [active] 398511002013 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 398511002014 SpoVR like protein; Region: SpoVR; pfam04293 398511002015 YusW-like protein; Region: YusW; pfam14039 398511002016 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398511002017 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398511002018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511002019 Walker A/P-loop; other site 398511002020 ATP binding site [chemical binding]; other site 398511002021 Q-loop/lid; other site 398511002022 ABC transporter signature motif; other site 398511002023 Walker B; other site 398511002024 D-loop; other site 398511002025 H-loop/switch region; other site 398511002026 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398511002027 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398511002028 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 398511002029 Walker A/P-loop; other site 398511002030 ATP binding site [chemical binding]; other site 398511002031 Q-loop/lid; other site 398511002032 ABC transporter signature motif; other site 398511002033 Walker B; other site 398511002034 D-loop; other site 398511002035 H-loop/switch region; other site 398511002036 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511002037 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 398511002038 active site 398511002039 phosphorylation site [posttranslational modification] 398511002040 intermolecular recognition site; other site 398511002041 dimerization interface [polypeptide binding]; other site 398511002042 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 398511002043 DNA binding site [nucleotide binding] 398511002044 HAMP domain; Region: HAMP; pfam00672 398511002045 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 398511002046 dimer interface [polypeptide binding]; other site 398511002047 phosphorylation site [posttranslational modification] 398511002048 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 398511002049 ATP binding site [chemical binding]; other site 398511002050 Mg2+ binding site [ion binding]; other site 398511002051 G-X-G motif; other site 398511002052 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 398511002053 Predicted membrane protein [Function unknown]; Region: COG3212 398511002054 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 398511002055 Predicted membrane protein [Function unknown]; Region: COG3212 398511002056 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 398511002057 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 398511002058 Predicted membrane protein [Function unknown]; Region: COG3212 398511002059 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 398511002060 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398511002061 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511002062 Coenzyme A binding pocket [chemical binding]; other site 398511002063 PAS domain S-box; Region: sensory_box; TIGR00229 398511002064 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 398511002065 putative active site [active] 398511002066 heme pocket [chemical binding]; other site 398511002067 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398511002068 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398511002069 metal binding site [ion binding]; metal-binding site 398511002070 active site 398511002071 I-site; other site 398511002072 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 398511002073 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 398511002074 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 398511002075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511002076 homodimer interface [polypeptide binding]; other site 398511002077 catalytic residue [active] 398511002078 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 398511002079 Na2 binding site [ion binding]; other site 398511002080 putative substrate binding site 1 [chemical binding]; other site 398511002081 Na binding site 1 [ion binding]; other site 398511002082 putative substrate binding site 2 [chemical binding]; other site 398511002083 isoaspartyl dipeptidase; Provisional; Region: PRK10657 398511002084 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 398511002085 active site 398511002086 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398511002087 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 398511002088 FAD binding site [chemical binding]; other site 398511002089 homotetramer interface [polypeptide binding]; other site 398511002090 substrate binding pocket [chemical binding]; other site 398511002091 catalytic base [active] 398511002092 AMP-binding domain protein; Validated; Region: PRK08315 398511002093 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398511002094 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 398511002095 acyl-activating enzyme (AAE) consensus motif; other site 398511002096 acyl-activating enzyme (AAE) consensus motif; other site 398511002097 putative AMP binding site [chemical binding]; other site 398511002098 putative active site [active] 398511002099 putative CoA binding site [chemical binding]; other site 398511002100 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 398511002101 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398511002102 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 398511002103 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398511002104 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 398511002105 carboxyltransferase (CT) interaction site; other site 398511002106 biotinylation site [posttranslational modification]; other site 398511002107 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 398511002108 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 398511002109 active site 398511002110 catalytic residues [active] 398511002111 metal binding site [ion binding]; metal-binding site 398511002112 enoyl-CoA hydratase; Provisional; Region: PRK07657 398511002113 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398511002114 substrate binding site [chemical binding]; other site 398511002115 oxyanion hole (OAH) forming residues; other site 398511002116 trimer interface [polypeptide binding]; other site 398511002117 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 398511002118 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 398511002119 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 398511002120 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 398511002121 acetyl-CoA synthetase; Provisional; Region: PRK00174 398511002122 Uncharacterized acyl-CoA synthetase subfamily similar to Acetoacetyl-CoA synthetase; Region: AACS_like; cd05968 398511002123 acyl-activating enzyme (AAE) consensus motif; other site 398511002124 putative AMP binding site [chemical binding]; other site 398511002125 putative active site [active] 398511002126 putative CoA binding site [chemical binding]; other site 398511002127 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 398511002128 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 398511002129 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 398511002130 Walker A/P-loop; other site 398511002131 ATP binding site [chemical binding]; other site 398511002132 Q-loop/lid; other site 398511002133 ABC transporter signature motif; other site 398511002134 Walker B; other site 398511002135 D-loop; other site 398511002136 H-loop/switch region; other site 398511002137 TOBE domain; Region: TOBE; pfam03459 398511002138 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 398511002139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 398511002140 hypothetical protein; Provisional; Region: PRK13676 398511002141 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 398511002142 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 398511002143 active site 398511002144 motif I; other site 398511002145 motif II; other site 398511002146 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398511002147 YhzD-like protein; Region: YhzD; pfam14120 398511002148 Predicted transcriptional regulators [Transcription]; Region: COG1725 398511002149 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398511002150 DNA-binding site [nucleotide binding]; DNA binding site 398511002151 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 398511002152 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398511002153 Walker A/P-loop; other site 398511002154 ATP binding site [chemical binding]; other site 398511002155 Q-loop/lid; other site 398511002156 ABC transporter signature motif; other site 398511002157 Walker B; other site 398511002158 D-loop; other site 398511002159 H-loop/switch region; other site 398511002160 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 398511002161 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 398511002162 Walker A/P-loop; other site 398511002163 ATP binding site [chemical binding]; other site 398511002164 Q-loop/lid; other site 398511002165 ABC transporter signature motif; other site 398511002166 Walker B; other site 398511002167 D-loop; other site 398511002168 H-loop/switch region; other site 398511002169 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 398511002170 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 398511002171 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 398511002172 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 398511002173 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511002174 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 398511002175 active site 398511002176 phosphorylation site [posttranslational modification] 398511002177 intermolecular recognition site; other site 398511002178 dimerization interface [polypeptide binding]; other site 398511002179 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 398511002180 DNA binding site [nucleotide binding] 398511002181 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398511002182 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 398511002183 dimer interface [polypeptide binding]; other site 398511002184 phosphorylation site [posttranslational modification] 398511002185 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 398511002186 ATP binding site [chemical binding]; other site 398511002187 G-X-G motif; other site 398511002188 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 398511002189 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511002190 putative substrate translocation pore; other site 398511002191 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 398511002192 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 398511002193 generic binding surface II; other site 398511002194 generic binding surface I; other site 398511002195 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398511002196 Zn2+ binding site [ion binding]; other site 398511002197 Mg2+ binding site [ion binding]; other site 398511002198 Sporulation protein YhaL; Region: Spore_YhaL; pfam14147 398511002199 Predicted membrane protein [Function unknown]; Region: COG2323 398511002200 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 398511002201 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398511002202 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 398511002203 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 398511002204 transcriptional regulator Hpr; Provisional; Region: PRK13777 398511002205 MarR family; Region: MarR; pfam01047 398511002206 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 398511002207 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 398511002208 homodimer interface [polypeptide binding]; other site 398511002209 substrate-cofactor binding pocket; other site 398511002210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511002211 catalytic residue [active] 398511002212 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 398511002213 HIT family signature motif; other site 398511002214 catalytic residue [active] 398511002215 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 398511002216 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 398511002217 acyl-activating enzyme (AAE) consensus motif; other site 398511002218 putative active site [active] 398511002219 AMP binding site [chemical binding]; other site 398511002220 putative CoA binding site [chemical binding]; other site 398511002221 Domain of unknown function (DUF3885); Region: DUF3885; pfam13021 398511002222 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 398511002223 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 398511002224 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398511002225 Walker A/P-loop; other site 398511002226 ATP binding site [chemical binding]; other site 398511002227 Q-loop/lid; other site 398511002228 ABC transporter signature motif; other site 398511002229 Walker B; other site 398511002230 D-loop; other site 398511002231 H-loop/switch region; other site 398511002232 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 398511002233 EcsC protein family; Region: EcsC; pfam12787 398511002234 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 398511002235 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 398511002236 phage shock protein A; Region: phageshock_pspA; TIGR02977 398511002237 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 398511002238 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 398511002239 Predicted membrane protein [Function unknown]; Region: COG4758 398511002240 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 398511002241 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398511002242 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 398511002243 dimerization interface [polypeptide binding]; other site 398511002244 Histidine kinase; Region: HisKA_3; pfam07730 398511002245 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 398511002246 ATP binding site [chemical binding]; other site 398511002247 Mg2+ binding site [ion binding]; other site 398511002248 G-X-G motif; other site 398511002249 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398511002250 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 398511002251 active site 398511002252 phosphorylation site [posttranslational modification] 398511002253 intermolecular recognition site; other site 398511002254 dimerization interface [polypeptide binding]; other site 398511002255 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 398511002256 DNA binding residues [nucleotide binding] 398511002257 dimerization interface [polypeptide binding]; other site 398511002258 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 398511002259 Transglycosylase; Region: Transgly; pfam00912 398511002260 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 398511002261 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398511002262 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 398511002263 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 398511002264 substrate binding site [chemical binding]; other site 398511002265 active site 398511002266 ferrochelatase; Provisional; Region: PRK12435 398511002267 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 398511002268 C-terminal domain interface [polypeptide binding]; other site 398511002269 active site 398511002270 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 398511002271 active site 398511002272 N-terminal domain interface [polypeptide binding]; other site 398511002273 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 398511002274 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398511002275 Probable sporulation protein (Bac_small_yrzI); Region: Bac_small_YrzI; cl09734 398511002276 NMT1-like family; Region: NMT1_2; pfam13379 398511002277 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398511002278 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398511002279 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 398511002280 dimer interface [polypeptide binding]; other site 398511002281 conserved gate region; other site 398511002282 ABC-ATPase subunit interface; other site 398511002283 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398511002284 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398511002285 Walker A/P-loop; other site 398511002286 ATP binding site [chemical binding]; other site 398511002287 Q-loop/lid; other site 398511002288 ABC transporter signature motif; other site 398511002289 Walker B; other site 398511002290 D-loop; other site 398511002291 H-loop/switch region; other site 398511002292 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 398511002293 GTPase CgtA; Reviewed; Region: obgE; PRK12297 398511002294 GTP1/OBG; Region: GTP1_OBG; pfam01018 398511002295 Obg GTPase; Region: Obg; cd01898 398511002296 G1 box; other site 398511002297 GTP/Mg2+ binding site [chemical binding]; other site 398511002298 Switch I region; other site 398511002299 G2 box; other site 398511002300 G3 box; other site 398511002301 Switch II region; other site 398511002302 G4 box; other site 398511002303 G5 box; other site 398511002304 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 398511002305 hypothetical protein; Provisional; Region: PRK04435 398511002306 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 398511002307 prephenate dehydratase; Provisional; Region: PRK11898 398511002308 Prephenate dehydratase; Region: PDT; pfam00800 398511002309 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 398511002310 putative L-Phe binding site [chemical binding]; other site 398511002311 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 398511002312 HTH domain; Region: HTH_11; pfam08279 398511002313 3H domain; Region: 3H; pfam02829 398511002314 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398511002315 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 398511002316 Bypass of Forespore C, N terminal; Region: BOFC_N; pfam08977 398511002317 BofC C-terminal domain; Region: BofC_C; pfam08955 398511002318 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 398511002319 RuvA N terminal domain; Region: RuvA_N; pfam01330 398511002320 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 398511002321 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 398511002322 Walker A motif; other site 398511002323 ATP binding site [chemical binding]; other site 398511002324 Walker B motif; other site 398511002325 arginine finger; other site 398511002326 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 398511002327 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 398511002328 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 398511002329 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 398511002330 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 398511002331 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 398511002332 Preprotein translocase subunit; Region: YajC; pfam02699 398511002333 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 398511002334 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 398511002335 transmembrane helices; other site 398511002336 Predicted membrane protein [Function unknown]; Region: COG2323 398511002337 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398511002338 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398511002339 stage V sporulation protein B; Region: spore_V_B; TIGR02900 398511002340 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 398511002341 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 398511002342 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 398511002343 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 398511002344 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 398511002345 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 398511002346 Protein export membrane protein; Region: SecD_SecF; pfam02355 398511002347 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 398511002348 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 398511002349 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 398511002350 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 398511002351 DHH family; Region: DHH; pfam01368 398511002352 DHHA1 domain; Region: DHHA1; pfam02272 398511002353 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; pfam10141 398511002354 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398511002355 active site 398511002356 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 398511002357 HD domain; Region: HD_4; pfam13328 398511002358 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 398511002359 synthetase active site [active] 398511002360 NTP binding site [chemical binding]; other site 398511002361 metal binding site [ion binding]; metal-binding site 398511002362 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 398511002363 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 398511002364 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 398511002365 putative active site [active] 398511002366 dimerization interface [polypeptide binding]; other site 398511002367 putative tRNAtyr binding site [nucleotide binding]; other site 398511002368 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 398511002369 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 398511002370 dimer interface [polypeptide binding]; other site 398511002371 motif 1; other site 398511002372 active site 398511002373 motif 2; other site 398511002374 motif 3; other site 398511002375 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 398511002376 anticodon binding site; other site 398511002377 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 398511002378 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 398511002379 dimer interface [polypeptide binding]; other site 398511002380 anticodon binding site; other site 398511002381 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 398511002382 homodimer interface [polypeptide binding]; other site 398511002383 motif 1; other site 398511002384 active site 398511002385 motif 2; other site 398511002386 GAD domain; Region: GAD; pfam02938 398511002387 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 398511002388 motif 3; other site 398511002389 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 398511002390 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 398511002391 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 398511002392 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 398511002393 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 398511002394 putative ATP binding site [chemical binding]; other site 398511002395 putative substrate interface [chemical binding]; other site 398511002396 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 398511002397 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 398511002398 Cache domain; Region: Cache_1; pfam02743 398511002399 HAMP domain; Region: HAMP; pfam00672 398511002400 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398511002401 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 398511002402 dimer interface [polypeptide binding]; other site 398511002403 phosphorylation site [posttranslational modification] 398511002404 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 398511002405 ATP binding site [chemical binding]; other site 398511002406 Mg2+ binding site [ion binding]; other site 398511002407 G-X-G motif; other site 398511002408 recombination factor protein RarA; Reviewed; Region: PRK13342 398511002409 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 398511002410 Walker A motif; other site 398511002411 ATP binding site [chemical binding]; other site 398511002412 Walker B motif; other site 398511002413 arginine finger; other site 398511002414 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 398511002415 Predicted membrane protein [Function unknown]; Region: COG2364 398511002416 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398511002417 Predicted transcriptional regulator [Transcription]; Region: COG1959 398511002418 Transcriptional regulator; Region: Rrf2; pfam02082 398511002419 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 398511002420 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 398511002421 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398511002422 catalytic residue [active] 398511002423 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 398511002424 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 398511002425 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 398511002426 binding surface 398511002427 TPR repeat; Region: TPR_11; pfam13414 398511002428 TPR motif; other site 398511002429 TPR repeat; Region: TPR_11; pfam13414 398511002430 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 398511002431 binding surface 398511002432 TPR motif; other site 398511002433 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 398511002434 AAA domain; Region: AAA_30; pfam13604 398511002435 Family description; Region: UvrD_C_2; pfam13538 398511002436 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 398511002437 PRC-barrel domain; Region: PRC; pfam05239 398511002438 Protein of unknown function (DUF3918); Region: DUF3918; pfam13056 398511002439 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398511002440 Domain of unknown function DUF20; Region: UPF0118; pfam01594 398511002441 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 398511002442 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 398511002443 motif 1; other site 398511002444 active site 398511002445 motif 2; other site 398511002446 motif 3; other site 398511002447 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 398511002448 DHHA1 domain; Region: DHHA1; pfam02272 398511002449 hypothetical protein; Provisional; Region: PRK05473 398511002450 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 398511002451 hypothetical protein; Provisional; Region: PRK13678 398511002452 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 398511002453 YceG-like family; Region: YceG; pfam02618 398511002454 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 398511002455 dimerization interface [polypeptide binding]; other site 398511002456 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 398511002457 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 398511002458 S-adenosylmethionine binding site [chemical binding]; other site 398511002459 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 398511002460 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 398511002461 Peptidase family U32; Region: Peptidase_U32; pfam01136 398511002462 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 398511002463 Peptidase family U32; Region: Peptidase_U32; pfam01136 398511002464 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 398511002465 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 398511002466 ATP-binding site [chemical binding]; other site 398511002467 Sugar specificity; other site 398511002468 Pyrimidine base specificity; other site 398511002469 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 398511002470 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 398511002471 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398511002472 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398511002473 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398511002474 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398511002475 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 398511002476 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 398511002477 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 398511002478 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398511002479 Soluble P-type ATPase [General function prediction only]; Region: COG4087 398511002480 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398511002481 HTH-like domain; Region: HTH_21; pfam13276 398511002482 Integrase core domain; Region: rve; pfam00665 398511002483 Integrase core domain; Region: rve_2; pfam13333 398511002484 MFS/sugar transport protein; Region: MFS_2; pfam13347 398511002485 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 398511002486 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 398511002487 Malonate transporter MadL subunit; Region: MadL; cl04273 398511002488 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398511002489 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398511002490 DNA-binding site [nucleotide binding]; DNA binding site 398511002491 FCD domain; Region: FCD; pfam07729 398511002492 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398511002493 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 398511002494 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 398511002495 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 398511002496 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 398511002497 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 398511002498 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 398511002499 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 398511002500 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 398511002501 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 398511002502 Catalytic NodB homology domain of uncharacterized bacterial glycosyl transferase, group 2-like family proteins; Region: CE4_GT2-like; cd10962 398511002503 NodB motif; other site 398511002504 putative active site [active] 398511002505 putative catalytic site [active] 398511002506 putative Zn binding site [ion binding]; other site 398511002507 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 398511002508 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 398511002509 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 398511002510 ATP binding site [chemical binding]; other site 398511002511 putative Mg++ binding site [ion binding]; other site 398511002512 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 398511002513 nucleotide binding region [chemical binding]; other site 398511002514 ATP-binding site [chemical binding]; other site 398511002515 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 398511002516 hypothetical protein; Provisional; Region: PRK05463 398511002517 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 398511002518 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 398511002519 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511002520 putative substrate translocation pore; other site 398511002521 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 398511002522 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398511002523 Walker A motif; other site 398511002524 ATP binding site [chemical binding]; other site 398511002525 Walker B motif; other site 398511002526 arginine finger; other site 398511002527 UvrB/uvrC motif; Region: UVR; pfam02151 398511002528 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 398511002529 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398511002530 Walker A motif; other site 398511002531 ATP binding site [chemical binding]; other site 398511002532 Walker B motif; other site 398511002533 arginine finger; other site 398511002534 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398511002535 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398511002536 NlpC/P60 family; Region: NLPC_P60; cl17555 398511002537 NlpC/P60 family; Region: NLPC_P60; cl17555 398511002538 NlpC/P60 family; Region: NLPC_P60; cl17555 398511002539 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398511002540 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398511002541 NlpC/P60 family; Region: NLPC_P60; cl17555 398511002542 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398511002543 NlpC/P60 family; Region: NLPC_P60; pfam00877 398511002544 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398511002545 NlpC/P60 family; Region: NLPC_P60; pfam00877 398511002546 NlpC/P60 family; Region: NLPC_P60; cl17555 398511002547 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; pfam10094 398511002548 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 398511002549 heme-binding site [chemical binding]; other site 398511002550 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398511002551 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398511002552 dimer interface [polypeptide binding]; other site 398511002553 putative CheW interface [polypeptide binding]; other site 398511002554 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 398511002555 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 398511002556 active site 398511002557 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 398511002558 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398511002559 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 398511002560 active site 398511002561 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398511002562 NlpC/P60 family; Region: NLPC_P60; pfam00877 398511002563 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 398511002564 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 398511002565 active site 398511002566 catalytic residues [active] 398511002567 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 398511002568 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 398511002569 SET domain; Region: SET; pfam00856 398511002570 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 398511002571 putative DNA binding site [nucleotide binding]; other site 398511002572 dimerization interface [polypeptide binding]; other site 398511002573 putative Zn2+ binding site [ion binding]; other site 398511002574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3860 398511002575 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 398511002576 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398511002577 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398511002578 Walker A/P-loop; other site 398511002579 ATP binding site [chemical binding]; other site 398511002580 Q-loop/lid; other site 398511002581 ABC transporter signature motif; other site 398511002582 Walker B; other site 398511002583 D-loop; other site 398511002584 H-loop/switch region; other site 398511002585 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 398511002586 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 398511002587 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 398511002588 active site 398511002589 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398511002590 FAD binding domain; Region: FAD_binding_4; pfam01565 398511002591 Predicted transcriptional regulator [Transcription]; Region: COG2378 398511002592 HTH domain; Region: HTH_11; pfam08279 398511002593 WYL domain; Region: WYL; pfam13280 398511002594 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 398511002595 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511002596 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 398511002597 DNA binding residues [nucleotide binding] 398511002598 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 398511002599 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 398511002600 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 398511002601 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398511002602 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398511002603 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398511002604 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398511002605 Walker A/P-loop; other site 398511002606 ATP binding site [chemical binding]; other site 398511002607 Q-loop/lid; other site 398511002608 ABC transporter signature motif; other site 398511002609 Walker B; other site 398511002610 D-loop; other site 398511002611 H-loop/switch region; other site 398511002612 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 398511002613 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 398511002614 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 398511002615 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511002616 lineage-specific thermal regulator protein; Provisional; Region: lstR; PRK09416 398511002617 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 398511002618 Predicted amidohydrolase [General function prediction only]; Region: COG0388 398511002619 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 398511002620 putative active site [active] 398511002621 catalytic triad [active] 398511002622 putative dimer interface [polypeptide binding]; other site 398511002623 Spore germination protein; Region: Spore_permease; cl17796 398511002624 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 398511002625 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 398511002626 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 398511002627 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398511002628 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398511002629 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511002630 Walker A/P-loop; other site 398511002631 ATP binding site [chemical binding]; other site 398511002632 Q-loop/lid; other site 398511002633 ABC transporter signature motif; other site 398511002634 Walker B; other site 398511002635 D-loop; other site 398511002636 H-loop/switch region; other site 398511002637 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 398511002638 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398511002639 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398511002640 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 398511002641 Phosphotransferase enzyme family; Region: APH; pfam01636 398511002642 Predicted membrane protein [Function unknown]; Region: COG1288 398511002643 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 398511002644 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398511002645 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 398511002646 active site 398511002647 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 398511002648 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 398511002649 active site 398511002650 DNA binding site [nucleotide binding] 398511002651 Int/Topo IB signature motif; other site 398511002652 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 398511002653 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 398511002654 TrkA-C domain; Region: TrkA_C; pfam02080 398511002655 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 398511002656 Predicted periplasmic protein (DUF2092); Region: DUF2092; cl17607 398511002657 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511002658 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 398511002659 active site 398511002660 phosphorylation site [posttranslational modification] 398511002661 intermolecular recognition site; other site 398511002662 dimerization interface [polypeptide binding]; other site 398511002663 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 398511002664 DNA binding site [nucleotide binding] 398511002665 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398511002666 HAMP domain; Region: HAMP; pfam00672 398511002667 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 398511002668 dimer interface [polypeptide binding]; other site 398511002669 phosphorylation site [posttranslational modification] 398511002670 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 398511002671 ATP binding site [chemical binding]; other site 398511002672 Mg2+ binding site [ion binding]; other site 398511002673 G-X-G motif; other site 398511002674 potential frameshift: common BLAST hit: gi|239827097|ref|YP_002949721.1| purine or other phosphorylase family 1 398511002675 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 398511002676 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 398511002677 active site 398511002678 catalytic triad [active] 398511002679 dimer interface [polypeptide binding]; other site 398511002680 heat shock protein HtpX; Provisional; Region: PRK05457 398511002681 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 398511002682 active site residue [active] 398511002683 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398511002684 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 398511002685 catalytic residues [active] 398511002686 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 398511002687 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 398511002688 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 398511002689 active site 398511002690 motif I; other site 398511002691 motif II; other site 398511002692 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 398511002693 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 398511002694 YrhK-like protein; Region: YrhK; pfam14145 398511002695 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 398511002696 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 398511002697 active site 398511002698 NAD binding site [chemical binding]; other site 398511002699 metal binding site [ion binding]; metal-binding site 398511002700 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 398511002701 active site 398511002702 glutamate dehydrogenase; Provisional; Region: PRK09414 398511002703 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 398511002704 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 398511002705 NAD(P) binding site [chemical binding]; other site 398511002706 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398511002707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398511002708 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 398511002709 dimerization interface [polypeptide binding]; other site 398511002710 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 398511002711 Protein of unknown function (DUF3895); Region: DUF3895; pfam13034 398511002712 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12859 398511002713 classical (c) SDRs; Region: SDR_c; cd05233 398511002714 NAD(P) binding site [chemical binding]; other site 398511002715 active site 398511002716 B12 binding domain; Region: B12-binding_2; pfam02607 398511002717 B12 binding domain; Region: B12-binding; pfam02310 398511002718 B12 binding site [chemical binding]; other site 398511002719 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 398511002720 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 398511002721 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 398511002722 active site 398511002723 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 398511002724 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398511002725 DNA binding residues [nucleotide binding] 398511002726 dimer interface [polypeptide binding]; other site 398511002727 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 398511002728 Phosphotransferase enzyme family; Region: APH; pfam01636 398511002729 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 398511002730 active site 398511002731 ATP binding site [chemical binding]; other site 398511002732 substrate binding site [chemical binding]; other site 398511002733 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 398511002734 PQQ-like domain; Region: PQQ_2; pfam13360 398511002735 active site 398511002736 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 398511002737 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 398511002738 active site 398511002739 phosphorylation site [posttranslational modification] 398511002740 intermolecular recognition site; other site 398511002741 dimerization interface [polypeptide binding]; other site 398511002742 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 398511002743 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 398511002744 putative active site [active] 398511002745 heme pocket [chemical binding]; other site 398511002746 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 398511002747 ATP binding site [chemical binding]; other site 398511002748 Mg2+ binding site [ion binding]; other site 398511002749 G-X-G motif; other site 398511002750 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 398511002751 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 398511002752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398511002753 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 398511002754 NAD(P) binding site [chemical binding]; other site 398511002755 substrate binding site [chemical binding]; other site 398511002756 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398511002757 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 398511002758 active site pocket [active] 398511002759 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398511002760 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398511002761 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 398511002762 dimerization interface [polypeptide binding]; other site 398511002763 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 398511002764 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398511002765 PYR/PP interface [polypeptide binding]; other site 398511002766 dimer interface [polypeptide binding]; other site 398511002767 TPP binding site [chemical binding]; other site 398511002768 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398511002769 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 398511002770 TPP-binding site [chemical binding]; other site 398511002771 dimer interface [polypeptide binding]; other site 398511002772 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 398511002773 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 398511002774 DctM-like transporters; Region: DctM; pfam06808 398511002775 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 398511002776 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 398511002777 homotrimer interaction site [polypeptide binding]; other site 398511002778 putative active site [active] 398511002779 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398511002780 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398511002781 NAD(P) binding site [chemical binding]; other site 398511002782 catalytic residues [active] 398511002783 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; cl00938 398511002784 iron-sulfur cluster [ion binding]; other site 398511002785 [2Fe-2S] cluster binding site [ion binding]; other site 398511002786 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 398511002787 beta subunit interface [polypeptide binding]; other site 398511002788 alpha subunit interface [polypeptide binding]; other site 398511002789 active site 398511002790 substrate binding site [chemical binding]; other site 398511002791 Fe binding site [ion binding]; other site 398511002792 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 398511002793 inter-subunit interface; other site 398511002794 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 398511002795 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 398511002796 putative substrate translocation pore; other site 398511002797 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398511002798 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398511002799 Bacterial transcriptional regulator; Region: IclR; pfam01614 398511002800 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398511002801 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 398511002802 DNA binding site [nucleotide binding] 398511002803 sequence specific DNA binding site [nucleotide binding]; other site 398511002804 putative cAMP binding site [chemical binding]; other site 398511002805 Bacterial transcriptional regulator; Region: IclR; pfam01614 398511002806 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 398511002807 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398511002808 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398511002809 Amidohydrolase; Region: Amidohydro_2; pfam04909 398511002810 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398511002811 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398511002812 Bacterial transcriptional regulator; Region: IclR; pfam01614 398511002813 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 398511002814 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 398511002815 NAD binding site [chemical binding]; other site 398511002816 catalytic residues [active] 398511002817 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398511002818 acetaldehyde dehydrogenase; Validated; Region: PRK08300 398511002819 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 398511002820 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 398511002821 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 398511002822 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 398511002823 active site 398511002824 catalytic residues [active] 398511002825 metal binding site [ion binding]; metal-binding site 398511002826 DmpG-like communication domain; Region: DmpG_comm; pfam07836 398511002827 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398511002828 4-oxalocrotonate tautomerase; Provisional; Region: PRK01964 398511002829 active site 1 [active] 398511002830 dimer interface [polypeptide binding]; other site 398511002831 hexamer interface [polypeptide binding]; other site 398511002832 active site 2 [active] 398511002833 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 398511002834 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 398511002835 active site 398511002836 metal binding site [ion binding]; metal-binding site 398511002837 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398511002838 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 398511002839 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 398511002840 DctM-like transporters; Region: DctM; pfam06808 398511002841 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 398511002842 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 398511002843 L-lactate permease; Region: Lactate_perm; cl00701 398511002844 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 398511002845 Cysteine-rich domain; Region: CCG; pfam02754 398511002846 Cysteine-rich domain; Region: CCG; pfam02754 398511002847 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 398511002848 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 398511002849 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 398511002850 Uncharacterized conserved protein [Function unknown]; Region: COG1556 398511002851 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398511002852 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398511002853 DNA-binding site [nucleotide binding]; DNA binding site 398511002854 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398511002855 Uncharacterized conserved protein (COG2071); Region: DUF2071; pfam09844 398511002856 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 398511002857 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511002858 putative substrate translocation pore; other site 398511002859 sulfite oxidase; Provisional; Region: PLN00177 398511002860 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 398511002861 Moco binding site; other site 398511002862 metal coordination site [ion binding]; other site 398511002863 dimerization interface [polypeptide binding]; other site 398511002864 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 398511002865 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_7; cd06244 398511002866 putative active site [active] 398511002867 Zn binding site [ion binding]; other site 398511002868 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 398511002869 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 398511002870 Catalytic site [active] 398511002871 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398511002872 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398511002873 metal binding site [ion binding]; metal-binding site 398511002874 active site 398511002875 I-site; other site 398511002876 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 398511002877 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 398511002878 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 398511002879 PA/protease domain interface [polypeptide binding]; other site 398511002880 putative integrin binding motif; other site 398511002881 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 398511002882 Peptidase family M28; Region: Peptidase_M28; pfam04389 398511002883 metal binding site [ion binding]; metal-binding site 398511002884 LXG domain of WXG superfamily; Region: LXG; pfam04740 398511002885 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 398511002886 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 398511002887 DNA-binding transcriptional repressor MngR; Provisional; Region: PRK09764 398511002888 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398511002889 DNA-binding site [nucleotide binding]; DNA binding site 398511002890 UTRA domain; Region: UTRA; pfam07702 398511002891 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 398511002892 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 398511002893 NAD binding site [chemical binding]; other site 398511002894 sugar binding site [chemical binding]; other site 398511002895 divalent metal binding site [ion binding]; other site 398511002896 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 398511002897 dimer interface [polypeptide binding]; other site 398511002898 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 398511002899 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 398511002900 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 398511002901 active site turn [active] 398511002902 phosphorylation site [posttranslational modification] 398511002903 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 398511002904 Spore germination protein; Region: Spore_permease; cl17796 398511002905 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 398511002906 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 398511002907 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 398511002908 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 398511002909 putative [Fe4-S4] binding site [ion binding]; other site 398511002910 putative molybdopterin cofactor binding site [chemical binding]; other site 398511002911 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 398511002912 putative molybdopterin cofactor binding site; other site 398511002913 Spore germination protein; Region: Spore_permease; cl17796 398511002914 Spore germination protein; Region: Spore_permease; cl17796 398511002915 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 398511002916 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 398511002917 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 398511002918 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 398511002919 Phosphoenolpyruvate carboxylase; Region: PEPcase; pfam00311 398511002920 Protein of unknown function (DUF2536); Region: DUF2536; pfam10750 398511002921 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 398511002922 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 398511002923 YrhC-like protein; Region: YrhC; pfam14143 398511002924 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398511002925 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 398511002926 Na binding site [ion binding]; other site 398511002927 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 398511002928 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511002929 putative substrate translocation pore; other site 398511002930 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 398511002931 putative active site [active] 398511002932 putative CoA binding site [chemical binding]; other site 398511002933 nudix motif; other site 398511002934 metal binding site [ion binding]; metal-binding site 398511002935 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398511002936 MarR family; Region: MarR; pfam01047 398511002937 MarR family; Region: MarR_2; cl17246 398511002938 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 398511002939 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 398511002940 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 398511002941 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 398511002942 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 398511002943 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 398511002944 active site 398511002945 putative catalytic site [active] 398511002946 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398511002947 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511002948 Coenzyme A binding pocket [chemical binding]; other site 398511002949 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 398511002950 active site 398511002951 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 398511002952 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 398511002953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 398511002954 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511002955 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 398511002956 putative substrate translocation pore; other site 398511002957 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511002958 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 398511002959 DNA binding site [nucleotide binding] 398511002960 hypothetical protein; Provisional; Region: PRK07338 398511002961 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 398511002962 metal binding site [ion binding]; metal-binding site 398511002963 dimer interface [polypeptide binding]; other site 398511002964 Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: SerS; COG0172 398511002965 Domain of unknown function DUF302; Region: DUF302; cl01364 398511002966 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398511002967 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 398511002968 dimerization interface [polypeptide binding]; other site 398511002969 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 398511002970 dimer interface [polypeptide binding]; other site 398511002971 phosphorylation site [posttranslational modification] 398511002972 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 398511002973 ATP binding site [chemical binding]; other site 398511002974 Mg2+ binding site [ion binding]; other site 398511002975 G-X-G motif; other site 398511002976 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511002977 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 398511002978 active site 398511002979 phosphorylation site [posttranslational modification] 398511002980 intermolecular recognition site; other site 398511002981 dimerization interface [polypeptide binding]; other site 398511002982 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 398511002983 DNA binding site [nucleotide binding] 398511002984 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 398511002985 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398511002986 catalytic residues [active] 398511002987 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 398511002988 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 398511002989 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 398511002990 S-adenosylmethionine binding site [chemical binding]; other site 398511002991 sporulation sigma factor SigK; Reviewed; Region: PRK05803 398511002992 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511002993 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 398511002994 DNA binding residues [nucleotide binding] 398511002995 Protein involved in polysaccharide intercellular adhesin (PIA) synthesis/biofilm formation [Carbohydrate transport and metabolism]; Region: COG3936 398511002996 Acyltransferase family; Region: Acyl_transf_3; pfam01757 398511002997 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 398511002998 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 398511002999 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 398511003000 PAS domain; Region: PAS_9; pfam13426 398511003001 putative active site [active] 398511003002 heme pocket [chemical binding]; other site 398511003003 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398511003004 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398511003005 metal binding site [ion binding]; metal-binding site 398511003006 active site 398511003007 I-site; other site 398511003008 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 398511003009 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398511003010 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 398511003011 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 398511003012 putative NAD(P) binding site [chemical binding]; other site 398511003013 active site 398511003014 putative substrate binding site [chemical binding]; other site 398511003015 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 398511003016 dimerization interface [polypeptide binding]; other site 398511003017 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398511003018 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398511003019 dimer interface [polypeptide binding]; other site 398511003020 putative CheW interface [polypeptide binding]; other site 398511003021 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 398511003022 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 398511003023 PAS domain; Region: PAS_9; pfam13426 398511003024 putative active site [active] 398511003025 heme pocket [chemical binding]; other site 398511003026 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398511003027 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 398511003028 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398511003029 PAS domain; Region: PAS_8; pfam13188 398511003030 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 398511003031 dimer interface [polypeptide binding]; other site 398511003032 phosphorylation site [posttranslational modification] 398511003033 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 398511003034 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 398511003035 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398511003036 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398511003037 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 398511003038 ATP binding site [chemical binding]; other site 398511003039 Mg2+ binding site [ion binding]; other site 398511003040 G-X-G motif; other site 398511003041 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 398511003042 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 398511003043 active site 398511003044 phosphorylation site [posttranslational modification] 398511003045 intermolecular recognition site; other site 398511003046 dimerization interface [polypeptide binding]; other site 398511003047 LytTr DNA-binding domain; Region: LytTR; smart00850 398511003048 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 398511003049 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 398511003050 ATP binding site [chemical binding]; other site 398511003051 Mg2+ binding site [ion binding]; other site 398511003052 G-X-G motif; other site 398511003053 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 398511003054 dimerization interface [polypeptide binding]; other site 398511003055 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 398511003056 anti sigma factor interaction site; other site 398511003057 regulatory phosphorylation site [posttranslational modification]; other site 398511003058 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 398511003059 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 398511003060 Protein of unknown function (DUF342); Region: DUF342; pfam03961 398511003061 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 398511003062 anti sigma factor interaction site; other site 398511003063 regulatory phosphorylation site [posttranslational modification]; other site 398511003064 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398511003065 GAF domain; Region: GAF; pfam01590 398511003066 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398511003067 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 398511003068 dimer interface [polypeptide binding]; other site 398511003069 phosphorylation site [posttranslational modification] 398511003070 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 398511003071 ATP binding site [chemical binding]; other site 398511003072 G-X-G motif; other site 398511003073 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 398511003074 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 398511003075 active site 398511003076 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 398511003077 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 398511003078 WYL domain; Region: WYL; pfam13280 398511003079 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 398511003080 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 398511003081 DHHA2 domain; Region: DHHA2; pfam02833 398511003082 RDD family; Region: RDD; pfam06271 398511003083 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 398511003084 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 398511003085 active site 398511003086 Zn binding site [ion binding]; other site 398511003087 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 398511003088 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398511003089 active site 398511003090 catalytic tetrad [active] 398511003091 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 398511003092 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 398511003093 dimer interface [polypeptide binding]; other site 398511003094 active site 398511003095 NMT1/THI5 like; Region: NMT1; pfam09084 398511003096 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398511003097 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 398511003098 dimer interface [polypeptide binding]; other site 398511003099 conserved gate region; other site 398511003100 putative PBP binding loops; other site 398511003101 ABC-ATPase subunit interface; other site 398511003102 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398511003103 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398511003104 Walker A/P-loop; other site 398511003105 ATP binding site [chemical binding]; other site 398511003106 Q-loop/lid; other site 398511003107 ABC transporter signature motif; other site 398511003108 Walker B; other site 398511003109 D-loop; other site 398511003110 H-loop/switch region; other site 398511003111 Putative transcription activator [Transcription]; Region: TenA; COG0819 398511003112 acetylornithine deacetylase; Validated; Region: PRK08596 398511003113 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 398511003114 metal binding site [ion binding]; metal-binding site 398511003115 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 398511003116 IHF dimer interface [polypeptide binding]; other site 398511003117 IHF - DNA interface [nucleotide binding]; other site 398511003118 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 398511003119 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 398511003120 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 398511003121 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 398511003122 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12600 398511003123 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 398511003124 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 398511003125 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398511003126 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 398511003127 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 398511003128 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 398511003129 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398511003130 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 398511003131 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 398511003132 Sporulation inhibitor A; Region: Sda; pfam08970 398511003133 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 398511003134 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 398511003135 active site 398511003136 motif I; other site 398511003137 motif II; other site 398511003138 GTPase YqeH; Provisional; Region: PRK13796 398511003139 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 398511003140 GTP/Mg2+ binding site [chemical binding]; other site 398511003141 G4 box; other site 398511003142 G5 box; other site 398511003143 G1 box; other site 398511003144 Switch I region; other site 398511003145 G2 box; other site 398511003146 G3 box; other site 398511003147 Switch II region; other site 398511003148 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 398511003149 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398511003150 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398511003151 shikimate binding site; other site 398511003152 NAD(P) binding site [chemical binding]; other site 398511003153 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 398511003154 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 398511003155 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 398511003156 active site 398511003157 (T/H)XGH motif; other site 398511003158 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398511003159 Zn2+ binding site [ion binding]; other site 398511003160 Mg2+ binding site [ion binding]; other site 398511003161 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 398511003162 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 398511003163 S1 domain; Region: S1_2; pfam13509 398511003164 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 398511003165 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 398511003166 S-adenosylmethionine binding site [chemical binding]; other site 398511003167 late competence protein ComER; Validated; Region: PRK07680 398511003168 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 398511003169 Protein of unknown function (DUF2533); Region: DUF2533; pfam10752 398511003170 SLBB domain; Region: SLBB; pfam10531 398511003171 comEA protein; Region: comE; TIGR01259 398511003172 Helix-hairpin-helix motif; Region: HHH; pfam00633 398511003173 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 398511003174 catalytic motif [active] 398511003175 Zn binding site [ion binding]; other site 398511003176 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 398511003177 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 398511003178 Competence protein; Region: Competence; pfam03772 398511003179 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 398511003180 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398511003181 YqzM-like protein; Region: YqzM; pfam14141 398511003182 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 398511003183 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 398511003184 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 398511003185 germination protease; Provisional; Region: PRK02858 398511003186 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 398511003187 stage II sporulation protein P; Region: spore_II_P; TIGR02867 398511003188 GTP-binding protein LepA; Provisional; Region: PRK05433 398511003189 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 398511003190 G1 box; other site 398511003191 putative GEF interaction site [polypeptide binding]; other site 398511003192 GTP/Mg2+ binding site [chemical binding]; other site 398511003193 Switch I region; other site 398511003194 G2 box; other site 398511003195 G3 box; other site 398511003196 Switch II region; other site 398511003197 G4 box; other site 398511003198 G5 box; other site 398511003199 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 398511003200 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 398511003201 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 398511003202 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 398511003203 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 398511003204 FeS/SAM binding site; other site 398511003205 HemN C-terminal domain; Region: HemN_C; pfam06969 398511003206 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 398511003207 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 398511003208 heat shock protein GrpE; Provisional; Region: PRK14140 398511003209 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 398511003210 dimer interface [polypeptide binding]; other site 398511003211 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 398511003212 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 398511003213 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 398511003214 nucleotide binding site [chemical binding]; other site 398511003215 NEF interaction site [polypeptide binding]; other site 398511003216 SBD interface [polypeptide binding]; other site 398511003217 chaperone protein DnaJ; Provisional; Region: PRK14287 398511003218 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 398511003219 HSP70 interaction site [polypeptide binding]; other site 398511003220 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 398511003221 substrate binding site [polypeptide binding]; other site 398511003222 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 398511003223 Zn binding sites [ion binding]; other site 398511003224 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 398511003225 dimer interface [polypeptide binding]; other site 398511003226 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 398511003227 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 398511003228 S-adenosylmethionine binding site [chemical binding]; other site 398511003229 RNA methyltransferase, RsmE family; Region: TIGR00046 398511003230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 398511003231 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 398511003232 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 398511003233 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 398511003234 FeS/SAM binding site; other site 398511003235 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 398511003236 intersubunit interface [polypeptide binding]; other site 398511003237 active site 398511003238 catalytic residue [active] 398511003239 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 398511003240 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 398511003241 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398511003242 catalytic residues [active] 398511003243 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 398511003244 putative homodimer interface [polypeptide binding]; other site 398511003245 putative homotetramer interface [polypeptide binding]; other site 398511003246 putative metal binding site [ion binding]; other site 398511003247 putative homodimer-homodimer interface [polypeptide binding]; other site 398511003248 putative allosteric switch controlling residues; other site 398511003249 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398511003250 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398511003251 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398511003252 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 398511003253 dimer interface [polypeptide binding]; other site 398511003254 active site 398511003255 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 398511003256 dimer interaction site [polypeptide binding]; other site 398511003257 substrate-binding tunnel; other site 398511003258 active site 398511003259 catalytic site [active] 398511003260 substrate binding site [chemical binding]; other site 398511003261 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398511003262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398511003263 NAD(P) binding site [chemical binding]; other site 398511003264 active site 398511003265 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 398511003266 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398511003267 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 398511003268 acyl-activating enzyme (AAE) consensus motif; other site 398511003269 acyl-activating enzyme (AAE) consensus motif; other site 398511003270 putative AMP binding site [chemical binding]; other site 398511003271 putative active site [active] 398511003272 putative CoA binding site [chemical binding]; other site 398511003273 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 398511003274 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398511003275 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 398511003276 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 398511003277 active site residue [active] 398511003278 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 398511003279 MgtC family; Region: MgtC; pfam02308 398511003280 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 398511003281 putative homodimer interface [polypeptide binding]; other site 398511003282 putative homotetramer interface [polypeptide binding]; other site 398511003283 putative metal binding site [ion binding]; other site 398511003284 putative homodimer-homodimer interface [polypeptide binding]; other site 398511003285 putative allosteric switch controlling residues; other site 398511003286 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 398511003287 CPxP motif; other site 398511003288 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 398511003289 active site residue [active] 398511003290 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 398511003291 active site residue [active] 398511003292 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398511003293 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 398511003294 CPxP motif; other site 398511003295 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 398511003296 high affinity sulphate transporter 1; Region: sulP; TIGR00815 398511003297 Sulfate transporter family; Region: Sulfate_transp; pfam00916 398511003298 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 398511003299 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 398511003300 active site clefts [active] 398511003301 zinc binding site [ion binding]; other site 398511003302 dimer interface [polypeptide binding]; other site 398511003303 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 398511003304 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 398511003305 active site residue [active] 398511003306 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 398511003307 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 398511003308 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 398511003309 Protein of unknown function (DUF2568); Region: DUF2568; pfam10823 398511003310 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 398511003311 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511003312 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 398511003313 DNA binding residues [nucleotide binding] 398511003314 stage II sporulation protein P; Region: spore_II_P; TIGR02867 398511003315 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 398511003316 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 398511003317 PhnA protein; Region: PhnA; pfam03831 398511003318 Nitronate monooxygenase; Region: NMO; pfam03060 398511003319 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 398511003320 FMN binding site [chemical binding]; other site 398511003321 substrate binding site [chemical binding]; other site 398511003322 putative catalytic residue [active] 398511003323 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 398511003324 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 398511003325 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 398511003326 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398511003327 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 398511003328 FAD binding site [chemical binding]; other site 398511003329 substrate binding site [chemical binding]; other site 398511003330 catalytic base [active] 398511003331 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 398511003332 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 398511003333 acyl-activating enzyme (AAE) consensus motif; other site 398511003334 putative AMP binding site [chemical binding]; other site 398511003335 putative active site [active] 398511003336 putative CoA binding site [chemical binding]; other site 398511003337 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398511003338 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398511003339 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398511003340 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 398511003341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398511003342 NAD(P) binding site [chemical binding]; other site 398511003343 active site 398511003344 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398511003345 classical (c) SDRs; Region: SDR_c; cd05233 398511003346 NAD(P) binding site [chemical binding]; other site 398511003347 active site 398511003348 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398511003349 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398511003350 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 398511003351 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 398511003352 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398511003353 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398511003354 enoyl-CoA hydratase; Provisional; Region: PRK06688 398511003355 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398511003356 substrate binding site [chemical binding]; other site 398511003357 oxyanion hole (OAH) forming residues; other site 398511003358 trimer interface [polypeptide binding]; other site 398511003359 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 398511003360 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 398511003361 Phosphotransferase enzyme family; Region: APH; pfam01636 398511003362 putative active site [active] 398511003363 putative substrate binding site [chemical binding]; other site 398511003364 ATP binding site [chemical binding]; other site 398511003365 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 398511003366 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 398511003367 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398511003368 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398511003369 active site 398511003370 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 398511003371 classical (c) SDRs; Region: SDR_c; cd05233 398511003372 NAD(P) binding site [chemical binding]; other site 398511003373 active site 398511003374 enoyl-CoA hydratase; Provisional; Region: PRK06688 398511003375 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398511003376 substrate binding site [chemical binding]; other site 398511003377 oxyanion hole (OAH) forming residues; other site 398511003378 trimer interface [polypeptide binding]; other site 398511003379 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398511003380 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 398511003381 NADP binding site [chemical binding]; other site 398511003382 dimer interface [polypeptide binding]; other site 398511003383 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398511003384 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 398511003385 TM-ABC transporter signature motif; other site 398511003386 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398511003387 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 398511003388 TM-ABC transporter signature motif; other site 398511003389 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398511003390 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398511003391 Walker A/P-loop; other site 398511003392 ATP binding site [chemical binding]; other site 398511003393 Q-loop/lid; other site 398511003394 ABC transporter signature motif; other site 398511003395 Walker B; other site 398511003396 D-loop; other site 398511003397 H-loop/switch region; other site 398511003398 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398511003399 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398511003400 Walker A/P-loop; other site 398511003401 ATP binding site [chemical binding]; other site 398511003402 Q-loop/lid; other site 398511003403 ABC transporter signature motif; other site 398511003404 Walker B; other site 398511003405 D-loop; other site 398511003406 H-loop/switch region; other site 398511003407 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398511003408 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 398511003409 putative ligand binding site [chemical binding]; other site 398511003410 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 398511003411 Yqey-like protein; Region: YqeY; pfam09424 398511003412 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 398511003413 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 398511003414 dimer interface [polypeptide binding]; other site 398511003415 active site residues [active] 398511003416 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 398511003417 hypothetical protein; Provisional; Region: PRK13665 398511003418 phosphodiesterase; Provisional; Region: PRK12704 398511003419 YabP family; Region: YabP; cl06766 398511003420 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 398511003421 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 398511003422 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 398511003423 PhoH-like protein; Region: PhoH; pfam02562 398511003424 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 398511003425 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 398511003426 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398511003427 Zn2+ binding site [ion binding]; other site 398511003428 Mg2+ binding site [ion binding]; other site 398511003429 metal-binding heat shock protein; Provisional; Region: PRK00016 398511003430 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 398511003431 Uncharacterized conserved protein [Function unknown]; Region: COG2928 398511003432 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 398511003433 active site 398511003434 catalytic motif [active] 398511003435 Zn binding site [ion binding]; other site 398511003436 GTPase Era; Reviewed; Region: era; PRK00089 398511003437 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 398511003438 G1 box; other site 398511003439 GTP/Mg2+ binding site [chemical binding]; other site 398511003440 Switch I region; other site 398511003441 G2 box; other site 398511003442 Switch II region; other site 398511003443 G3 box; other site 398511003444 G4 box; other site 398511003445 G5 box; other site 398511003446 KH domain; Region: KH_2; pfam07650 398511003447 YqzL-like protein; Region: YqzL; pfam14006 398511003448 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 398511003449 Recombination protein O N terminal; Region: RecO_N; pfam11967 398511003450 Recombination protein O C terminal; Region: RecO_C; pfam02565 398511003451 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 398511003452 dimer interface [polypeptide binding]; other site 398511003453 motif 1; other site 398511003454 active site 398511003455 motif 2; other site 398511003456 motif 3; other site 398511003457 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 398511003458 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 398511003459 HTH domain; Region: HTH_11; pfam08279 398511003460 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 398511003461 FOG: CBS domain [General function prediction only]; Region: COG0517 398511003462 PEP synthetase regulatory protein; Provisional; Region: PRK05339 398511003463 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 398511003464 DNA primase; Validated; Region: dnaG; PRK05667 398511003465 CHC2 zinc finger; Region: zf-CHC2; pfam01807 398511003466 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 398511003467 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 398511003468 active site 398511003469 metal binding site [ion binding]; metal-binding site 398511003470 interdomain interaction site; other site 398511003471 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 398511003472 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 398511003473 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 398511003474 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398511003475 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511003476 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398511003477 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 398511003478 DNA binding residues [nucleotide binding] 398511003479 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398511003480 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398511003481 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 398511003482 Family of unknown function (DUF633); Region: DUF633; pfam04816 398511003483 Uncharacterized conserved protein [Function unknown]; Region: COG0327 398511003484 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 398511003485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 398511003486 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 398511003487 Uncharacterized conserved protein [Function unknown]; Region: COG0327 398511003488 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 398511003489 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 398511003490 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 398511003491 YqfQ-like protein; Region: YqfQ; pfam14181 398511003492 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 398511003493 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398511003494 ATP binding site [chemical binding]; other site 398511003495 Mg++ binding site [ion binding]; other site 398511003496 motif III; other site 398511003497 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 398511003498 nucleotide binding region [chemical binding]; other site 398511003499 ATP-binding site [chemical binding]; other site 398511003500 endonuclease IV; Provisional; Region: PRK01060 398511003501 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 398511003502 AP (apurinic/apyrimidinic) site pocket; other site 398511003503 DNA interaction; other site 398511003504 Metal-binding active site; metal-binding site 398511003505 Protein of unknown function (DUF2624); Region: DUF2624; pfam11116 398511003506 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 398511003507 dimer interface [polypeptide binding]; other site 398511003508 phosphorylation site [posttranslational modification] 398511003509 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 398511003510 ATP binding site [chemical binding]; other site 398511003511 Mg2+ binding site [ion binding]; other site 398511003512 G-X-G motif; other site 398511003513 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 398511003514 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 398511003515 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 398511003516 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 398511003517 ABC-ATPase subunit interface; other site 398511003518 dimer interface [polypeptide binding]; other site 398511003519 putative PBP binding regions; other site 398511003520 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398511003521 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 398511003522 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398511003523 catalytic residue [active] 398511003524 polyphosphate kinase; Provisional; Region: PRK05443 398511003525 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 398511003526 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 398511003527 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 398511003528 putative domain interface [polypeptide binding]; other site 398511003529 putative active site [active] 398511003530 catalytic site [active] 398511003531 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 398511003532 putative domain interface [polypeptide binding]; other site 398511003533 putative active site [active] 398511003534 catalytic site [active] 398511003535 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 398511003536 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 398511003537 nucleotide binding site [chemical binding]; other site 398511003538 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 398511003539 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 398511003540 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 398511003541 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 398511003542 ABC-ATPase subunit interface; other site 398511003543 dimer interface [polypeptide binding]; other site 398511003544 putative PBP binding regions; other site 398511003545 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 398511003546 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 398511003547 ABC-ATPase subunit interface; other site 398511003548 dimer interface [polypeptide binding]; other site 398511003549 putative PBP binding regions; other site 398511003550 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398511003551 metal binding site 2 [ion binding]; metal-binding site 398511003552 putative DNA binding helix; other site 398511003553 metal binding site 1 [ion binding]; metal-binding site 398511003554 dimer interface [polypeptide binding]; other site 398511003555 structural Zn2+ binding site [ion binding]; other site 398511003556 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 398511003557 Uncharacterized conserved protein [Function unknown]; Region: COG5663 398511003558 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398511003559 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 398511003560 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 398511003561 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 398511003562 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 398511003563 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511003564 putative substrate translocation pore; other site 398511003565 Predicted secreted protein [Function unknown]; Region: COG4086 398511003566 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 398511003567 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 398511003568 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 398511003569 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 398511003570 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 398511003571 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 398511003572 PhoU domain; Region: PhoU; pfam01895 398511003573 PhoU domain; Region: PhoU; pfam01895 398511003574 Bacitracin resistance protein BacA; Region: BacA; cl00858 398511003575 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 398511003576 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 398511003577 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 398511003578 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511003579 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 398511003580 putative substrate translocation pore; other site 398511003581 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 398511003582 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398511003583 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398511003584 YceG-like family; Region: YceG; pfam02618 398511003585 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 398511003586 Uncharacterized conserved protein [Function unknown]; Region: COG1543 398511003587 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 398511003588 active site 398511003589 substrate binding site [chemical binding]; other site 398511003590 catalytic site [active] 398511003591 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 398511003592 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 398511003593 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398511003594 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 398511003595 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 398511003596 active site 398511003597 Substrate binding site; other site 398511003598 Mg++ binding site; other site 398511003599 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 398511003600 putative trimer interface [polypeptide binding]; other site 398511003601 putative CoA binding site [chemical binding]; other site 398511003602 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 398511003603 putative trimer interface [polypeptide binding]; other site 398511003604 putative CoA binding site [chemical binding]; other site 398511003605 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 398511003606 active site 398511003607 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 398511003608 substrate binding site [chemical binding]; other site 398511003609 metal binding site [ion binding]; metal-binding site 398511003610 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 398511003611 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 398511003612 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 398511003613 Integral membrane protein DUF92; Region: DUF92; pfam01940 398511003614 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 398511003615 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 398511003616 ATP binding site [chemical binding]; other site 398511003617 substrate interface [chemical binding]; other site 398511003618 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 398511003619 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 398511003620 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 398511003621 motif II; other site 398511003622 Rhomboid family; Region: Rhomboid; pfam01694 398511003623 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 398511003624 binding surface 398511003625 TPR motif; other site 398511003626 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 398511003627 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 398511003628 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 398511003629 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 398511003630 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 398511003631 nucleotide binding site [chemical binding]; other site 398511003632 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 398511003633 Aspartase; Region: Aspartase; cd01357 398511003634 active sites [active] 398511003635 tetramer interface [polypeptide binding]; other site 398511003636 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 398511003637 thiamine phosphate binding site [chemical binding]; other site 398511003638 active site 398511003639 pyrophosphate binding site [ion binding]; other site 398511003640 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 398511003641 thiS-thiF/thiG interaction site; other site 398511003642 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 398511003643 ThiS interaction site; other site 398511003644 putative active site [active] 398511003645 tetramer interface [polypeptide binding]; other site 398511003646 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 398511003647 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 398511003648 dimer interface [polypeptide binding]; other site 398511003649 substrate binding site [chemical binding]; other site 398511003650 ATP binding site [chemical binding]; other site 398511003651 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14250 398511003652 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 398511003653 Walker A/P-loop; other site 398511003654 ATP binding site [chemical binding]; other site 398511003655 Q-loop/lid; other site 398511003656 ABC transporter signature motif; other site 398511003657 Walker B; other site 398511003658 D-loop; other site 398511003659 H-loop/switch region; other site 398511003660 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 398511003661 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 398511003662 Domain of unknown function DUF77; Region: DUF77; pfam01910 398511003663 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511003664 Coenzyme A binding pocket [chemical binding]; other site 398511003665 hypothetical protein; Provisional; Region: PRK13679 398511003666 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 398511003667 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 398511003668 Putative esterase; Region: Esterase; pfam00756 398511003669 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 398511003670 tetramer interfaces [polypeptide binding]; other site 398511003671 binuclear metal-binding site [ion binding]; other site 398511003672 fumarate hydratase; Reviewed; Region: fumC; PRK00485 398511003673 Class II fumarases; Region: Fumarase_classII; cd01362 398511003674 active site 398511003675 tetramer interface [polypeptide binding]; other site 398511003676 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 398511003677 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 398511003678 Nucleoside recognition; Region: Gate; pfam07670 398511003679 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 398511003680 Predicted transcriptional regulators [Transcription]; Region: COG1725 398511003681 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398511003682 DNA-binding site [nucleotide binding]; DNA binding site 398511003683 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398511003684 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398511003685 Walker A/P-loop; other site 398511003686 ATP binding site [chemical binding]; other site 398511003687 Q-loop/lid; other site 398511003688 ABC transporter signature motif; other site 398511003689 Walker B; other site 398511003690 D-loop; other site 398511003691 H-loop/switch region; other site 398511003692 methionine sulfoxide reductase B; Provisional; Region: PRK00222 398511003693 SelR domain; Region: SelR; pfam01641 398511003694 methionine sulfoxide reductase A; Provisional; Region: PRK14054 398511003695 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 398511003696 Sulfate transporter family; Region: Sulfate_transp; pfam00916 398511003697 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 398511003698 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 398511003699 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 398511003700 Spore germination protein; Region: Spore_permease; pfam03845 398511003701 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 398511003702 YvrJ protein family; Region: YvrJ; pfam12841 398511003703 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 398511003704 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 398511003705 BCCT family transporter; Region: BCCT; pfam02028 398511003706 YtkA-like; Region: YtkA; pfam13115 398511003707 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398511003708 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 398511003709 dimerization interface [polypeptide binding]; other site 398511003710 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 398511003711 dimer interface [polypeptide binding]; other site 398511003712 phosphorylation site [posttranslational modification] 398511003713 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 398511003714 ATP binding site [chemical binding]; other site 398511003715 Mg2+ binding site [ion binding]; other site 398511003716 G-X-G motif; other site 398511003717 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511003718 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 398511003719 active site 398511003720 phosphorylation site [posttranslational modification] 398511003721 intermolecular recognition site; other site 398511003722 dimerization interface [polypeptide binding]; other site 398511003723 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 398511003724 DNA binding site [nucleotide binding] 398511003725 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 398511003726 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 398511003727 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 398511003728 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 398511003729 Spore germination protein; Region: Spore_permease; cl17796 398511003730 potential frameshift: common BLAST hit: gi|118476317|ref|YP_893468.1| spore germination protein KA 398511003731 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398511003732 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398511003733 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 398511003734 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398511003735 putative active site [active] 398511003736 heme pocket [chemical binding]; other site 398511003737 PAS domain; Region: PAS_8; pfam13188 398511003738 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398511003739 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 398511003740 dimer interface [polypeptide binding]; other site 398511003741 phosphorylation site [posttranslational modification] 398511003742 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 398511003743 ATP binding site [chemical binding]; other site 398511003744 Mg2+ binding site [ion binding]; other site 398511003745 G-X-G motif; other site 398511003746 PilZ domain; Region: PilZ; pfam07238 398511003747 LysE type translocator; Region: LysE; pfam01810 398511003748 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 398511003749 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 398511003750 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398511003751 substrate binding pocket [chemical binding]; other site 398511003752 membrane-bound complex binding site; other site 398511003753 hinge residues; other site 398511003754 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398511003755 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 398511003756 dimer interface [polypeptide binding]; other site 398511003757 conserved gate region; other site 398511003758 putative PBP binding loops; other site 398511003759 ABC-ATPase subunit interface; other site 398511003760 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398511003761 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398511003762 Walker A/P-loop; other site 398511003763 ATP binding site [chemical binding]; other site 398511003764 Q-loop/lid; other site 398511003765 ABC transporter signature motif; other site 398511003766 Walker B; other site 398511003767 D-loop; other site 398511003768 H-loop/switch region; other site 398511003769 Predicted membrane protein [Function unknown]; Region: COG4129 398511003770 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 398511003771 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 398511003772 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 398511003773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 398511003774 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398511003775 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 398511003776 dimer interface [polypeptide binding]; other site 398511003777 substrate binding site [chemical binding]; other site 398511003778 metal binding site [ion binding]; metal-binding site 398511003779 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 398511003780 peptidase T-like protein; Region: PepT-like; TIGR01883 398511003781 metal binding site [ion binding]; metal-binding site 398511003782 putative dimer interface [polypeptide binding]; other site 398511003783 Transposase; Region: HTH_Tnp_1; cl17663 398511003784 HTH-like domain; Region: HTH_21; pfam13276 398511003785 Integrase core domain; Region: rve; pfam00665 398511003786 Integrase core domain; Region: rve_3; pfam13683 398511003787 RNA polymerase sigma-B factor; Region: Sigma_B; TIGR02941 398511003788 DNA polymerase IV; Validated; Region: PRK01810 398511003789 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 398511003790 active site 398511003791 DNA binding site [nucleotide binding] 398511003792 TRAM domain; Region: TRAM; cl01282 398511003793 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 398511003794 Flagellar protein FliS; Region: FliS; cl00654 398511003795 flagellin; Provisional; Region: PRK12806 398511003796 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398511003797 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 398511003798 Protein of unknown function (DUF327); Region: DUF327; pfam03885 398511003799 CAAX protease self-immunity; Region: Abi; pfam02517 398511003800 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 398511003801 hydrophobic ligand binding site; other site 398511003802 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398511003803 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 398511003804 active site 398511003805 FMN binding site [chemical binding]; other site 398511003806 substrate binding site [chemical binding]; other site 398511003807 homotetramer interface [polypeptide binding]; other site 398511003808 catalytic residue [active] 398511003809 FOG: CBS domain [General function prediction only]; Region: COG0517 398511003810 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 398511003811 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 398511003812 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 398511003813 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 398511003814 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 398511003815 Active Sites [active] 398511003816 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 398511003817 ATP-sulfurylase; Region: ATPS; cd00517 398511003818 active site 398511003819 HXXH motif; other site 398511003820 flexible loop; other site 398511003821 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 398511003822 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 398511003823 ligand-binding site [chemical binding]; other site 398511003824 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 398511003825 active site 398511003826 catalytic triad [active] 398511003827 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 398511003828 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511003829 Coenzyme A binding pocket [chemical binding]; other site 398511003830 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 398511003831 NodB motif; other site 398511003832 putative active site [active] 398511003833 putative catalytic site [active] 398511003834 Zn binding site [ion binding]; other site 398511003835 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398511003836 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398511003837 DNA binding residues [nucleotide binding] 398511003838 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed; Region: PRK07168 398511003839 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 398511003840 active site 398511003841 SAM binding site [chemical binding]; other site 398511003842 homodimer interface [polypeptide binding]; other site 398511003843 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 398511003844 active site 398511003845 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 398511003846 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 398511003847 putative active site [active] 398511003848 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-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_C; cd03414 398511003849 putative active site [active] 398511003850 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 398511003851 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 398511003852 putative GTP cyclohydrolase; Provisional; Region: PRK13674 398511003853 aspartate kinase; Reviewed; Region: PRK09034 398511003854 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 398511003855 putative catalytic residues [active] 398511003856 putative nucleotide binding site [chemical binding]; other site 398511003857 putative aspartate binding site [chemical binding]; other site 398511003858 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 398511003859 allosteric regulatory residue; other site 398511003860 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 398511003861 Ion transport protein; Region: Ion_trans; pfam00520 398511003862 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 398511003863 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398511003864 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 398511003865 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 398511003866 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 398511003867 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 398511003868 putative catalytic cysteine [active] 398511003869 gamma-glutamyl kinase; Provisional; Region: PRK05429 398511003870 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 398511003871 nucleotide binding site [chemical binding]; other site 398511003872 homotetrameric interface [polypeptide binding]; other site 398511003873 putative phosphate binding site [ion binding]; other site 398511003874 putative allosteric binding site; other site 398511003875 PUA domain; Region: PUA; pfam01472 398511003876 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 398511003877 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398511003878 NAD(P) binding site [chemical binding]; other site 398511003879 active site 398511003880 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 398511003881 active site 398511003882 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 398511003883 dimer interface [polypeptide binding]; other site 398511003884 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 398511003885 Ligand Binding Site [chemical binding]; other site 398511003886 Molecular Tunnel; other site 398511003887 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398511003888 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398511003889 Predicted membrane protein [Function unknown]; Region: COG1511 398511003890 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 398511003891 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 398511003892 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 398511003893 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 398511003894 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 398511003895 Response regulator receiver domain; Region: Response_reg; pfam00072 398511003896 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 398511003897 active site 398511003898 phosphorylation site [posttranslational modification] 398511003899 intermolecular recognition site; other site 398511003900 dimerization interface [polypeptide binding]; other site 398511003901 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398511003902 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398511003903 metal binding site [ion binding]; metal-binding site 398511003904 active site 398511003905 I-site; other site 398511003906 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 398511003907 Response regulator receiver domain; Region: Response_reg; pfam00072 398511003908 active site 398511003909 phosphorylation site [posttranslational modification] 398511003910 intermolecular recognition site; other site 398511003911 dimerization interface [polypeptide binding]; other site 398511003912 HEAT repeats; Region: HEAT_2; pfam13646 398511003913 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 398511003914 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 398511003915 DXD motif; other site 398511003916 Response regulator receiver domain; Region: Response_reg; pfam00072 398511003917 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 398511003918 active site 398511003919 phosphorylation site [posttranslational modification] 398511003920 intermolecular recognition site; other site 398511003921 dimerization interface [polypeptide binding]; other site 398511003922 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398511003923 GAF domain; Region: GAF_3; pfam13492 398511003924 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398511003925 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 398511003926 dimer interface [polypeptide binding]; other site 398511003927 phosphorylation site [posttranslational modification] 398511003928 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 398511003929 ATP binding site [chemical binding]; other site 398511003930 Mg2+ binding site [ion binding]; other site 398511003931 G-X-G motif; other site 398511003932 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 398511003933 active site 398511003934 phosphorylation site [posttranslational modification] 398511003935 intermolecular recognition site; other site 398511003936 dimerization interface [polypeptide binding]; other site 398511003937 Domain of unknown function (DUF4077); Region: DUF4077; pfam13295 398511003938 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398511003939 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398511003940 dimer interface [polypeptide binding]; other site 398511003941 putative CheW interface [polypeptide binding]; other site 398511003942 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398511003943 phytoene desaturase; Region: crtI_fam; TIGR02734 398511003944 RAB proteins geranylgeranyltransferase component A (RAB escort protein) [Posttranslational modification, protein turnover, chaperones]; Region: MRS6; cl17678 398511003945 phytoene desaturase; Region: crtI_fam; TIGR02734 398511003946 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398511003947 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 398511003948 active site lid residues [active] 398511003949 substrate binding pocket [chemical binding]; other site 398511003950 catalytic residues [active] 398511003951 substrate-Mg2+ binding site; other site 398511003952 aspartate-rich region 1; other site 398511003953 aspartate-rich region 2; other site 398511003954 phytoene desaturase; Region: crtI_fam; TIGR02734 398511003955 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398511003956 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 398511003957 active site 398511003958 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398511003959 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cd06551 398511003960 putative acyl-acceptor binding pocket; other site 398511003961 Protein of unknown function (DUF422); Region: DUF422; cl00991 398511003962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398511003963 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 398511003964 NAD(P) binding site [chemical binding]; other site 398511003965 active site 398511003966 short chain dehydrogenase; Provisional; Region: PRK06701 398511003967 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 398511003968 NAD binding site [chemical binding]; other site 398511003969 metal binding site [ion binding]; metal-binding site 398511003970 active site 398511003971 YycC-like protein; Region: YycC; pfam14174 398511003972 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 398511003973 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398511003974 active site 398511003975 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398511003976 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 398511003977 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 398511003978 HPr interaction site; other site 398511003979 glycerol kinase (GK) interaction site [polypeptide binding]; other site 398511003980 active site 398511003981 phosphorylation site [posttranslational modification] 398511003982 CAT RNA binding domain; Region: CAT_RBD; pfam03123 398511003983 transcriptional antiterminator BglG; Provisional; Region: PRK09772 398511003984 PRD domain; Region: PRD; pfam00874 398511003985 PRD domain; Region: PRD; pfam00874 398511003986 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398511003987 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 398511003988 putative substrate binding site [chemical binding]; other site 398511003989 putative ATP binding site [chemical binding]; other site 398511003990 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 398511003991 Carbon starvation protein CstA; Region: CstA; pfam02554 398511003992 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 398511003993 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 398511003994 Predicted permeases [General function prediction only]; Region: COG0701 398511003995 hypothetical protein; Provisional; Region: PRK04164 398511003996 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398511003997 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 398511003998 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 398511003999 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 398511004000 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 398511004001 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 398511004002 Phosphotransferase enzyme family; Region: APH; pfam01636 398511004003 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 398511004004 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: RLP_DK-MTP-1-P-enolase; cd08209 398511004005 dimer interface [polypeptide binding]; other site 398511004006 active site 398511004007 catalytic residue [active] 398511004008 metal binding site [ion binding]; metal-binding site 398511004009 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 398511004010 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 398511004011 active site 398511004012 motif I; other site 398511004013 motif II; other site 398511004014 methylthioribulose-1-phosphate dehydratase; Reviewed; Region: mtnB; PRK06754 398511004015 intersubunit interface [polypeptide binding]; other site 398511004016 active site 398511004017 Zn2+ binding site [ion binding]; other site 398511004018 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 398511004019 Cupin domain; Region: Cupin_2; pfam07883 398511004020 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 398511004021 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 398511004022 NADH(P)-binding; Region: NAD_binding_10; pfam13460 398511004023 NAD(P) binding site [chemical binding]; other site 398511004024 putative active site [active] 398511004025 Predicted permeases [General function prediction only]; Region: COG0679 398511004026 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 398511004027 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 398511004028 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398511004029 catalytic residues [active] 398511004030 Protein of unknown function (DUF3866); Region: DUF3866; pfam12982 398511004031 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 398511004032 dimer interface [polypeptide binding]; other site 398511004033 ADP-ribose binding site [chemical binding]; other site 398511004034 active site 398511004035 nudix motif; other site 398511004036 metal binding site [ion binding]; metal-binding site 398511004037 methionine gamma-lyase; Provisional; Region: PRK06767 398511004038 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 398511004039 homodimer interface [polypeptide binding]; other site 398511004040 substrate-cofactor binding pocket; other site 398511004041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511004042 catalytic residue [active] 398511004043 Integral membrane protein DUF95; Region: DUF95; cl00572 398511004044 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398511004045 metal binding site 2 [ion binding]; metal-binding site 398511004046 putative DNA binding helix; other site 398511004047 metal binding site 1 [ion binding]; metal-binding site 398511004048 dimer interface [polypeptide binding]; other site 398511004049 structural Zn2+ binding site [ion binding]; other site 398511004050 Protein of unknown function (DUF4227); Region: DUF4227; pfam14004 398511004051 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 398511004052 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 398511004053 active site 398511004054 Int/Topo IB signature motif; other site 398511004055 phosphopentomutase; Provisional; Region: PRK05362 398511004056 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 398511004057 purine nucleoside phosphorylase; Provisional; Region: PRK08202 398511004058 purine nucleoside phosphorylase; Provisional; Region: PRK08202 398511004059 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 398511004060 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 398511004061 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 398511004062 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 398511004063 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 398511004064 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 398511004065 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 398511004066 active site 398511004067 nucleophile elbow; other site 398511004068 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 398511004069 putative disulfide oxidoreductase; Provisional; Region: PRK03113 398511004070 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 398511004071 catalytic residues [active] 398511004072 threonine synthase; Validated; Region: PRK08197 398511004073 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 398511004074 homodimer interface [polypeptide binding]; other site 398511004075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511004076 catalytic residue [active] 398511004077 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398511004078 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398511004079 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398511004080 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398511004081 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 398511004082 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 398511004083 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 398511004084 anti-sigma F factor antagonist; Region: spore_II_AA; TIGR02886 398511004085 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 398511004086 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 398511004087 ATP binding site [chemical binding]; other site 398511004088 Mg2+ binding site [ion binding]; other site 398511004089 G-X-G motif; other site 398511004090 sporulation sigma factor SigF; Validated; Region: PRK05572 398511004091 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511004092 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398511004093 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 398511004094 DNA binding residues [nucleotide binding] 398511004095 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 398511004096 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 398511004097 SpoVA protein; Region: SpoVA; cl04298 398511004098 stage V sporulation protein AD; Validated; Region: PRK08304 398511004099 stage V sporulation protein AD; Provisional; Region: PRK12404 398511004100 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 398511004101 Stage V sporulation protein AE1; Region: SpoVAE; pfam14097 398511004102 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 398511004103 diaminopimelate decarboxylase; Region: lysA; TIGR01048 398511004104 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 398511004105 active site 398511004106 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398511004107 substrate binding site [chemical binding]; other site 398511004108 catalytic residues [active] 398511004109 dimer interface [polypeptide binding]; other site 398511004110 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 398511004111 active site 398511004112 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 398511004113 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 398511004114 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 398511004115 active site 398511004116 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 398511004117 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398511004118 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398511004119 Walker A/P-loop; other site 398511004120 ATP binding site [chemical binding]; other site 398511004121 Q-loop/lid; other site 398511004122 ABC transporter signature motif; other site 398511004123 Walker B; other site 398511004124 D-loop; other site 398511004125 H-loop/switch region; other site 398511004126 Predicted transcriptional regulators [Transcription]; Region: COG1725 398511004127 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398511004128 DNA-binding site [nucleotide binding]; DNA binding site 398511004129 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 398511004130 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 398511004131 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 398511004132 TrkA-C domain; Region: TrkA_C; pfam02080 398511004133 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 398511004134 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 398511004135 catalytic motif [active] 398511004136 Zn binding site [ion binding]; other site 398511004137 RibD C-terminal domain; Region: RibD_C; cl17279 398511004138 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 398511004139 Lumazine binding domain; Region: Lum_binding; pfam00677 398511004140 Lumazine binding domain; Region: Lum_binding; pfam00677 398511004141 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 398511004142 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 398511004143 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 398511004144 dimerization interface [polypeptide binding]; other site 398511004145 active site 398511004146 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 398511004147 homopentamer interface [polypeptide binding]; other site 398511004148 active site 398511004149 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511004150 Coenzyme A binding pocket [chemical binding]; other site 398511004151 Domain of unknown function (DUF309); Region: DUF309; pfam03745 398511004152 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 398511004153 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 398511004154 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 398511004155 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 398511004156 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 398511004157 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 398511004158 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 398511004159 Predicted membrane protein [Function unknown]; Region: COG2323 398511004160 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 398511004161 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 398511004162 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 398511004163 stage V sporulation protein AD; Provisional; Region: PRK12404 398511004164 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 398511004165 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 398511004166 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 398511004167 Predicted membrane protein [Function unknown]; Region: COG2323 398511004168 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 398511004169 Predicted membrane protein [Function unknown]; Region: COG2323 398511004170 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 398511004171 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 398511004172 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 398511004173 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 398511004174 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398511004175 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 398511004176 RNA binding surface [nucleotide binding]; other site 398511004177 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 398511004178 active site 398511004179 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 398511004180 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398511004181 catalytic residues [active] 398511004182 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 398511004183 ResB-like family; Region: ResB; pfam05140 398511004184 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 398511004185 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 398511004186 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511004187 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 398511004188 active site 398511004189 phosphorylation site [posttranslational modification] 398511004190 intermolecular recognition site; other site 398511004191 dimerization interface [polypeptide binding]; other site 398511004192 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 398511004193 DNA binding site [nucleotide binding] 398511004194 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 398511004195 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 398511004196 dimerization interface [polypeptide binding]; other site 398511004197 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 398511004198 dimer interface [polypeptide binding]; other site 398511004199 phosphorylation site [posttranslational modification] 398511004200 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 398511004201 ATP binding site [chemical binding]; other site 398511004202 Mg2+ binding site [ion binding]; other site 398511004203 G-X-G motif; other site 398511004204 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398511004205 MarR family; Region: MarR_2; pfam12802 398511004206 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 398511004207 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 398511004208 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 398511004209 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 398511004210 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 398511004211 putative binding site residues; other site 398511004212 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398511004213 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 398511004214 ABC-ATPase subunit interface; other site 398511004215 dimer interface [polypeptide binding]; other site 398511004216 putative PBP binding regions; other site 398511004217 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398511004218 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398511004219 Walker A/P-loop; other site 398511004220 ATP binding site [chemical binding]; other site 398511004221 Q-loop/lid; other site 398511004222 ABC transporter signature motif; other site 398511004223 Walker B; other site 398511004224 D-loop; other site 398511004225 H-loop/switch region; other site 398511004226 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 398511004227 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 398511004228 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 398511004229 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 398511004230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511004231 homodimer interface [polypeptide binding]; other site 398511004232 catalytic residue [active] 398511004233 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 398511004234 homotrimer interface [polypeptide binding]; other site 398511004235 Walker A motif; other site 398511004236 GTP binding site [chemical binding]; other site 398511004237 Walker B motif; other site 398511004238 cobyric acid synthase; Provisional; Region: PRK00784 398511004239 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 398511004240 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 398511004241 catalytic triad [active] 398511004242 cobalamin synthase; Reviewed; Region: cobS; PRK00235 398511004243 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 398511004244 catalytic core [active] 398511004245 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 398511004246 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 398511004247 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 398511004248 VanW like protein; Region: VanW; pfam04294 398511004249 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 398511004250 Spore germination protein; Region: Spore_permease; pfam03845 398511004251 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 398511004252 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 398511004253 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398511004254 Peptidase family M23; Region: Peptidase_M23; pfam01551 398511004255 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398511004256 histidinol-phosphatase; Provisional; Region: PRK07328 398511004257 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 398511004258 active site 398511004259 dimer interface [polypeptide binding]; other site 398511004260 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 398511004261 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 398511004262 ligand binding site [chemical binding]; other site 398511004263 NAD binding site [chemical binding]; other site 398511004264 dimerization interface [polypeptide binding]; other site 398511004265 catalytic site [active] 398511004266 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 398511004267 putative L-serine binding site [chemical binding]; other site 398511004268 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398511004269 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 398511004270 putative active site [active] 398511004271 Zn binding site [ion binding]; other site 398511004272 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 398511004273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 398511004274 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 398511004275 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 398511004276 ATP binding site [chemical binding]; other site 398511004277 putative Mg++ binding site [ion binding]; other site 398511004278 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 398511004279 nucleotide binding region [chemical binding]; other site 398511004280 ATP-binding site [chemical binding]; other site 398511004281 CAAX protease self-immunity; Region: Abi; pfam02517 398511004282 Protein of unknown function (DUF2663); Region: DUF2663; pfam10864 398511004283 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398511004284 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 398511004285 metal binding site [ion binding]; metal-binding site 398511004286 dimer interface [polypeptide binding]; other site 398511004287 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 398511004288 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511004289 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 398511004290 DNA binding residues [nucleotide binding] 398511004291 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 398511004292 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398511004293 putative active site [active] 398511004294 putative metal binding site [ion binding]; other site 398511004295 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398511004296 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 398511004297 DNA binding residues [nucleotide binding] 398511004298 B12 binding domain; Region: B12-binding_2; pfam02607 398511004299 B12 binding domain; Region: B12-binding; pfam02310 398511004300 adaptor protein; Provisional; Region: PRK02899 398511004301 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 398511004302 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 398511004303 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398511004304 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 398511004305 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 398511004306 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 398511004307 NAD(P) binding site [chemical binding]; other site 398511004308 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 398511004309 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 398511004310 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511004311 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 398511004312 active site 398511004313 homotetramer interface [polypeptide binding]; other site 398511004314 homodimer interface [polypeptide binding]; other site 398511004315 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 398511004316 cystathionine gamma-synthase; Reviewed; Region: PRK08247 398511004317 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 398511004318 homodimer interface [polypeptide binding]; other site 398511004319 substrate-cofactor binding pocket; other site 398511004320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511004321 catalytic residue [active] 398511004322 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 398511004323 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 398511004324 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 398511004325 FAD binding site [chemical binding]; other site 398511004326 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 398511004327 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 398511004328 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 398511004329 substrate binding pocket [chemical binding]; other site 398511004330 dimer interface [polypeptide binding]; other site 398511004331 inhibitor binding site; inhibition site 398511004332 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 398511004333 B12 binding site [chemical binding]; other site 398511004334 cobalt ligand [ion binding]; other site 398511004335 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 398511004336 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398511004337 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 398511004338 germination protein YpeB; Region: spore_YpeB; TIGR02889 398511004339 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 398511004340 Flagellar protein YcgR; Region: YcgR_2; pfam12945 398511004341 PilZ domain; Region: PilZ; pfam07238 398511004342 cytidylate kinase; Provisional; Region: cmk; PRK00023 398511004343 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 398511004344 CMP-binding site; other site 398511004345 The sites determining sugar specificity; other site 398511004346 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398511004347 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398511004348 putative acyl-acceptor binding pocket; other site 398511004349 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 398511004350 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 398511004351 RNA binding site [nucleotide binding]; other site 398511004352 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 398511004353 RNA binding site [nucleotide binding]; other site 398511004354 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 398511004355 RNA binding site [nucleotide binding]; other site 398511004356 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 398511004357 RNA binding site [nucleotide binding]; other site 398511004358 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 398511004359 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 398511004360 homotetramer interface [polypeptide binding]; other site 398511004361 FMN binding site [chemical binding]; other site 398511004362 homodimer contacts [polypeptide binding]; other site 398511004363 putative active site [active] 398511004364 putative substrate binding site [chemical binding]; other site 398511004365 YpzI-like protein; Region: YpzI; pfam14140 398511004366 GTP-binding protein Der; Reviewed; Region: PRK00093 398511004367 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 398511004368 G1 box; other site 398511004369 GTP/Mg2+ binding site [chemical binding]; other site 398511004370 Switch I region; other site 398511004371 G2 box; other site 398511004372 Switch II region; other site 398511004373 G3 box; other site 398511004374 G4 box; other site 398511004375 G5 box; other site 398511004376 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 398511004377 G1 box; other site 398511004378 GTP/Mg2+ binding site [chemical binding]; other site 398511004379 Switch I region; other site 398511004380 G2 box; other site 398511004381 G3 box; other site 398511004382 Switch II region; other site 398511004383 G4 box; other site 398511004384 G5 box; other site 398511004385 membrane protein; Provisional; Region: PRK14405 398511004386 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 398511004387 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 398511004388 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 398511004389 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 398511004390 Protein of unknown function (DUF2768); Region: DUF2768; pfam10966 398511004391 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 398511004392 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 398511004393 transcription attenuation protein MtrB; Provisional; Region: PRK13251 398511004394 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 398511004395 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 398511004396 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 398511004397 S-adenosylmethionine binding site [chemical binding]; other site 398511004398 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 398511004399 UbiA prenyltransferase family; Region: UbiA; pfam01040 398511004400 aromatic acid decarboxylase; Validated; Region: PRK05920 398511004401 Flavoprotein; Region: Flavoprotein; pfam02441 398511004402 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 398511004403 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 398511004404 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 398511004405 substrate binding pocket [chemical binding]; other site 398511004406 chain length determination region; other site 398511004407 substrate-Mg2+ binding site; other site 398511004408 catalytic residues [active] 398511004409 aspartate-rich region 1; other site 398511004410 active site lid residues [active] 398511004411 aspartate-rich region 2; other site 398511004412 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 398511004413 active site 398511004414 multimer interface [polypeptide binding]; other site 398511004415 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 398511004416 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 398511004417 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 398511004418 S-adenosylmethionine binding site [chemical binding]; other site 398511004419 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 398511004420 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 398511004421 Tetramer interface [polypeptide binding]; other site 398511004422 active site 398511004423 FMN-binding site [chemical binding]; other site 398511004424 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 398511004425 active site 398511004426 dimer interface [polypeptide binding]; other site 398511004427 metal binding site [ion binding]; metal-binding site 398511004428 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 398511004429 homotrimer interaction site [polypeptide binding]; other site 398511004430 active site 398511004431 anthranilate synthase component I; Provisional; Region: PRK13569 398511004432 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 398511004433 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 398511004434 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 398511004435 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 398511004436 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 398511004437 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 398511004438 active site 398511004439 ribulose/triose binding site [chemical binding]; other site 398511004440 phosphate binding site [ion binding]; other site 398511004441 substrate (anthranilate) binding pocket [chemical binding]; other site 398511004442 product (indole) binding pocket [chemical binding]; other site 398511004443 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 398511004444 active site 398511004445 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 398511004446 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 398511004447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511004448 catalytic residue [active] 398511004449 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 398511004450 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 398511004451 substrate binding site [chemical binding]; other site 398511004452 active site 398511004453 catalytic residues [active] 398511004454 heterodimer interface [polypeptide binding]; other site 398511004455 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 398511004456 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 398511004457 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511004458 homodimer interface [polypeptide binding]; other site 398511004459 catalytic residue [active] 398511004460 prephenate dehydrogenase; Validated; Region: PRK06545 398511004461 prephenate dehydrogenase; Validated; Region: PRK08507 398511004462 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 398511004463 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 398511004464 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 398511004465 hinge; other site 398511004466 active site 398511004467 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398511004468 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 398511004469 binding surface 398511004470 TPR motif; other site 398511004471 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398511004472 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 398511004473 binding surface 398511004474 TPR motif; other site 398511004475 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398511004476 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 398511004477 TPR motif; other site 398511004478 binding surface 398511004479 hypothetical protein; Provisional; Region: PRK03636 398511004480 UPF0302 domain; Region: UPF0302; pfam08864 398511004481 IDEAL domain; Region: IDEAL; pfam08858 398511004482 Protein of unknown function (DUF2487); Region: DUF2487; pfam10673 398511004483 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 398511004484 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 398511004485 iron-sulfur cluster [ion binding]; other site 398511004486 [2Fe-2S] cluster binding site [ion binding]; other site 398511004487 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 398511004488 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 398511004489 interchain domain interface [polypeptide binding]; other site 398511004490 intrachain domain interface; other site 398511004491 heme bH binding site [chemical binding]; other site 398511004492 Qi binding site; other site 398511004493 heme bL binding site [chemical binding]; other site 398511004494 Qo binding site; other site 398511004495 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 398511004496 Cytochrome b(C-terminus)/b6/petD: 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_C; cl00193 398511004497 interchain domain interface [polypeptide binding]; other site 398511004498 intrachain domain interface; other site 398511004499 Qi binding site; other site 398511004500 Qo binding site; other site 398511004501 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398511004502 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398511004503 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 398511004504 Sporulation protein YpjB (SpoYpjB); Region: Spore_YpjB; cl09800 398511004505 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 398511004506 Uncharacterized conserved protein [Function unknown]; Region: COG1284 398511004507 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398511004508 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398511004509 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 398511004510 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 398511004511 homodimer interface [polypeptide binding]; other site 398511004512 metal binding site [ion binding]; metal-binding site 398511004513 dihydrodipicolinate reductase; Provisional; Region: PRK00048 398511004514 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 398511004515 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 398511004516 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 398511004517 active site 398511004518 dimer interfaces [polypeptide binding]; other site 398511004519 catalytic residues [active] 398511004520 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 398511004521 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 398511004522 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 398511004523 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 398511004524 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 398511004525 active site 398511004526 NTP binding site [chemical binding]; other site 398511004527 metal binding triad [ion binding]; metal-binding site 398511004528 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 398511004529 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 398511004530 Biotin operon repressor [Transcription]; Region: BirA; COG1654 398511004531 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 398511004532 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 398511004533 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 398511004534 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 398511004535 oligomerization interface [polypeptide binding]; other site 398511004536 active site 398511004537 metal binding site [ion binding]; metal-binding site 398511004538 pantoate--beta-alanine ligase; Region: panC; TIGR00018 398511004539 Pantoate-beta-alanine ligase; Region: PanC; cd00560 398511004540 active site 398511004541 ATP-binding site [chemical binding]; other site 398511004542 pantoate-binding site; other site 398511004543 HXXH motif; other site 398511004544 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 398511004545 tetramerization interface [polypeptide binding]; other site 398511004546 active site 398511004547 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 398511004548 binding surface 398511004549 TPR motif; other site 398511004550 TPR repeat; Region: TPR_11; pfam13414 398511004551 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 398511004552 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 398511004553 active site 398511004554 catalytic site [active] 398511004555 substrate binding site [chemical binding]; other site 398511004556 DEAD/DEAH box helicase; Region: DEAD; pfam00270 398511004557 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 398511004558 putative Mg++ binding site [ion binding]; other site 398511004559 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 398511004560 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 398511004561 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 398511004562 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 398511004563 active site 398511004564 putative substrate binding pocket [chemical binding]; other site 398511004565 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 398511004566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 398511004567 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 398511004568 aspartate aminotransferase; Provisional; Region: PRK05764 398511004569 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 398511004570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511004571 homodimer interface [polypeptide binding]; other site 398511004572 catalytic residue [active] 398511004573 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 398511004574 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 398511004575 putative dimer interface [polypeptide binding]; other site 398511004576 putative anticodon binding site; other site 398511004577 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 398511004578 homodimer interface [polypeptide binding]; other site 398511004579 motif 1; other site 398511004580 motif 2; other site 398511004581 active site 398511004582 motif 3; other site 398511004583 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 398511004584 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 398511004585 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 398511004586 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398511004587 minor groove reading motif; other site 398511004588 helix-hairpin-helix signature motif; other site 398511004589 substrate binding pocket [chemical binding]; other site 398511004590 active site 398511004591 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 398511004592 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 398511004593 Dynamin family; Region: Dynamin_N; pfam00350 398511004594 G1 box; other site 398511004595 GTP/Mg2+ binding site [chemical binding]; other site 398511004596 G2 box; other site 398511004597 Switch I region; other site 398511004598 G3 box; other site 398511004599 Switch II region; other site 398511004600 G4 box; other site 398511004601 G5 box; other site 398511004602 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 398511004603 Dynamin family; Region: Dynamin_N; pfam00350 398511004604 G1 box; other site 398511004605 GTP/Mg2+ binding site [chemical binding]; other site 398511004606 G2 box; other site 398511004607 Switch I region; other site 398511004608 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 398511004609 G3 box; other site 398511004610 Switch II region; other site 398511004611 GTP/Mg2+ binding site [chemical binding]; other site 398511004612 G4 box; other site 398511004613 G5 box; other site 398511004614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398511004615 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398511004616 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398511004617 Transglycosylase; Region: Transgly; pfam00912 398511004618 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 398511004619 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 398511004620 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 398511004621 Interdomain contacts; other site 398511004622 Cytokine receptor motif; other site 398511004623 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 398511004624 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 398511004625 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 398511004626 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 398511004627 DNA binding residues [nucleotide binding] 398511004628 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 398511004629 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 398511004630 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 398511004631 active site residue [active] 398511004632 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 398511004633 active site residue [active] 398511004634 Predicted membrane protein [Function unknown]; Region: COG2860 398511004635 UPF0126 domain; Region: UPF0126; pfam03458 398511004636 UPF0126 domain; Region: UPF0126; pfam03458 398511004637 threonine dehydratase; Validated; Region: PRK08639 398511004638 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 398511004639 tetramer interface [polypeptide binding]; other site 398511004640 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511004641 catalytic residue [active] 398511004642 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 398511004643 putative Ile/Val binding site [chemical binding]; other site 398511004644 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 398511004645 Response regulator receiver domain; Region: Response_reg; pfam00072 398511004646 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 398511004647 active site 398511004648 phosphorylation site [posttranslational modification] 398511004649 intermolecular recognition site; other site 398511004650 dimerization interface [polypeptide binding]; other site 398511004651 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398511004652 Uncharacterized conserved protein [Function unknown]; Region: COG1284 398511004653 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398511004654 ribonuclease Z; Region: RNase_Z; TIGR02651 398511004655 Protein of unknown function (DUF2524); Region: DUF2524; pfam10732 398511004656 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 398511004657 catalytic residues [active] 398511004658 Disulphide isomerase; Region: Disulph_isomer; pfam06491 398511004659 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 398511004660 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398511004661 catalytic residues [active] 398511004662 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 398511004663 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398511004664 active site 398511004665 metal binding site [ion binding]; metal-binding site 398511004666 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 398511004667 Virulence factor; Region: Virulence_fact; pfam13769 398511004668 HEAT repeats; Region: HEAT_2; pfam13646 398511004669 HEAT repeats; Region: HEAT_2; pfam13646 398511004670 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 398511004671 Uncharacterized conserved protein [Function unknown]; Region: COG3402 398511004672 Predicted membrane protein [Function unknown]; Region: COG3428 398511004673 Bacterial PH domain; Region: DUF304; pfam03703 398511004674 Bacterial PH domain; Region: DUF304; pfam03703 398511004675 Bacterial PH domain; Region: DUF304; cl01348 398511004676 Protein of unknown function (DUF2777); Region: DUF2777; pfam10949 398511004677 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398511004678 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 398511004679 Dot/Icm substrate protein; Region: SidE; pfam12252 398511004680 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 398511004681 NRDE protein; Region: NRDE; cl01315 398511004682 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 398511004683 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 398511004684 active site 398511004685 dimer interface [polypeptide binding]; other site 398511004686 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 398511004687 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 398511004688 active site 398511004689 FMN binding site [chemical binding]; other site 398511004690 substrate binding site [chemical binding]; other site 398511004691 3Fe-4S cluster binding site [ion binding]; other site 398511004692 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 398511004693 domain interface; other site 398511004694 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 398511004695 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398511004696 YpjP-like protein; Region: YpjP; pfam14005 398511004697 Kinase associated protein B; Region: KapB; pfam08810 398511004698 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 398511004699 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 398511004700 cystathionine gamma-synthase; Provisional; Region: PRK08249 398511004701 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 398511004702 homodimer interface [polypeptide binding]; other site 398511004703 substrate-cofactor binding pocket; other site 398511004704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511004705 catalytic residue [active] 398511004706 homoserine dehydrogenase; Provisional; Region: PRK06270 398511004707 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 398511004708 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398511004709 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 398511004710 NAD(P) binding site [chemical binding]; other site 398511004711 catalytic residues [active] 398511004712 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 398511004713 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 398511004714 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 398511004715 active site 398511004716 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398511004717 EamA-like transporter family; Region: EamA; pfam00892 398511004718 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 398511004719 dihydrodipicolinate synthase; Region: dapA; TIGR00674 398511004720 dimer interface [polypeptide binding]; other site 398511004721 active site 398511004722 catalytic residue [active] 398511004723 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 398511004724 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 398511004725 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 398511004726 active site 398511004727 motif I; other site 398511004728 motif II; other site 398511004729 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398511004730 Protein of unknown function (DUF523); Region: DUF523; pfam04463 398511004731 Uncharacterized conserved protein [Function unknown]; Region: COG3272 398511004732 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 398511004733 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 398511004734 DNA-binding site [nucleotide binding]; DNA binding site 398511004735 RNA-binding motif; other site 398511004736 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 398511004737 AbgT putative transporter family; Region: ABG_transport; pfam03806 398511004738 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 398511004739 DNA-binding site [nucleotide binding]; DNA binding site 398511004740 RNA-binding motif; other site 398511004741 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 398511004742 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 398511004743 DNA binding residues [nucleotide binding] 398511004744 putative dimer interface [polypeptide binding]; other site 398511004745 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398511004746 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398511004747 active site 398511004748 SEC-C motif; Region: SEC-C; pfam02810 398511004749 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 398511004750 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 398511004751 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 398511004752 Nitrogen regulatory protein P-II; Region: P-II; smart00938 398511004753 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 398511004754 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398511004755 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398511004756 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 398511004757 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 398511004758 ATP binding site [chemical binding]; other site 398511004759 putative Mg++ binding site [ion binding]; other site 398511004760 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 398511004761 nucleotide binding region [chemical binding]; other site 398511004762 ATP-binding site [chemical binding]; other site 398511004763 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 398511004764 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 398511004765 RNase_H superfamily; Region: RNase_H_2; pfam13482 398511004766 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 398511004767 hypothetical protein; Provisional; Region: PRK13660 398511004768 cell division protein GpsB; Provisional; Region: PRK14127 398511004769 DivIVA domain; Region: DivI1A_domain; TIGR03544 398511004770 Protein of unknown function (DUF972); Region: DUF972; pfam06156 398511004771 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 398511004772 RNA/DNA hybrid binding site [nucleotide binding]; other site 398511004773 active site 398511004774 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 398511004775 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 398511004776 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 398511004777 Protein of unknown function (DUF2564); Region: DUF2564; pfam10819 398511004778 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 398511004779 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 398511004780 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 398511004781 active site 398511004782 Zn binding site [ion binding]; other site 398511004783 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 398511004784 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 398511004785 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 398511004786 active site 398511004787 DNA binding site [nucleotide binding] 398511004788 Int/Topo IB signature motif; other site 398511004789 6-carboxyhexanoate--CoA ligase; Provisional; Region: PRK01322 398511004790 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 398511004791 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 398511004792 substrate-cofactor binding pocket; other site 398511004793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511004794 catalytic residue [active] 398511004795 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 398511004796 Cytochrome P450; Region: p450; cl12078 398511004797 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 398511004798 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398511004799 NAD binding site [chemical binding]; other site 398511004800 ligand binding site [chemical binding]; other site 398511004801 catalytic site [active] 398511004802 putative acyltransferase; Provisional; Region: PRK05790 398511004803 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398511004804 dimer interface [polypeptide binding]; other site 398511004805 active site 398511004806 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 398511004807 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398511004808 PAS domain; Region: PAS; smart00091 398511004809 putative active site [active] 398511004810 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398511004811 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 398511004812 Walker A motif; other site 398511004813 ATP binding site [chemical binding]; other site 398511004814 Walker B motif; other site 398511004815 arginine finger; other site 398511004816 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398511004817 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 398511004818 Coenzyme A transferase; Region: CoA_trans; smart00882 398511004819 Coenzyme A transferase; Region: CoA_trans; cl17247 398511004820 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 398511004821 fructuronate transporter; Provisional; Region: PRK10034; cl15264 398511004822 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398511004823 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 398511004824 NAD(P) binding site [chemical binding]; other site 398511004825 homotetramer interface [polypeptide binding]; other site 398511004826 homodimer interface [polypeptide binding]; other site 398511004827 active site 398511004828 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 398511004829 short chain dehydrogenase; Provisional; Region: PRK07677 398511004830 NAD(P) binding site [chemical binding]; other site 398511004831 substrate binding site [chemical binding]; other site 398511004832 homotetramer interface [polypeptide binding]; other site 398511004833 active site 398511004834 homodimer interface [polypeptide binding]; other site 398511004835 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 398511004836 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 398511004837 Walker A/P-loop; other site 398511004838 ATP binding site [chemical binding]; other site 398511004839 Q-loop/lid; other site 398511004840 ABC transporter signature motif; other site 398511004841 Walker B; other site 398511004842 D-loop; other site 398511004843 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 398511004844 H-loop/switch region; other site 398511004845 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 398511004846 dimer interface [polypeptide binding]; other site 398511004847 conserved gate region; other site 398511004848 ABC-ATPase subunit interface; other site 398511004849 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 398511004850 Predicted membrane protein [Function unknown]; Region: COG4325 398511004851 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 398511004852 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 398511004853 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398511004854 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398511004855 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 398511004856 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 398511004857 ATP binding site [chemical binding]; other site 398511004858 Mg2+ binding site [ion binding]; other site 398511004859 G-X-G motif; other site 398511004860 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 398511004861 anchoring element; other site 398511004862 dimer interface [polypeptide binding]; other site 398511004863 ATP binding site [chemical binding]; other site 398511004864 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 398511004865 active site 398511004866 putative metal-binding site [ion binding]; other site 398511004867 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 398511004868 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 398511004869 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 398511004870 CAP-like domain; other site 398511004871 active site 398511004872 primary dimer interface [polypeptide binding]; other site 398511004873 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398511004874 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398511004875 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398511004876 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 398511004877 Domain of unknown function DUF20; Region: UPF0118; pfam01594 398511004878 V-type ATP synthase subunit A; Provisional; Region: PRK14698 398511004879 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398511004880 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398511004881 PGAP1-like protein; Region: PGAP1; pfam07819 398511004882 Coat F domain; Region: Coat_F; pfam07875 398511004883 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398511004884 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 398511004885 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398511004886 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398511004887 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 398511004888 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 398511004889 catalytic core [active] 398511004890 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 398511004891 TIGR01777 family protein; Region: yfcH 398511004892 putative NAD(P) binding site [chemical binding]; other site 398511004893 putative active site [active] 398511004894 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 398511004895 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 398511004896 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 398511004897 agmatinase; Region: agmatinase; TIGR01230 398511004898 oligomer interface [polypeptide binding]; other site 398511004899 putative active site [active] 398511004900 Mn binding site [ion binding]; other site 398511004901 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 398511004902 PAS domain; Region: PAS_9; pfam13426 398511004903 putative active site [active] 398511004904 heme pocket [chemical binding]; other site 398511004905 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398511004906 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 398511004907 Walker A motif; other site 398511004908 ATP binding site [chemical binding]; other site 398511004909 Walker B motif; other site 398511004910 arginine finger; other site 398511004911 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 398511004912 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 398511004913 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 398511004914 NAD(P) binding site [chemical binding]; other site 398511004915 catalytic residues [active] 398511004916 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 398511004917 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 398511004918 inhibitor-cofactor binding pocket; inhibition site 398511004919 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511004920 catalytic residue [active] 398511004921 maltose O-acetyltransferase; Provisional; Region: PRK10092 398511004922 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 398511004923 active site 398511004924 substrate binding site [chemical binding]; other site 398511004925 trimer interface [polypeptide binding]; other site 398511004926 CoA binding site [chemical binding]; other site 398511004927 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 398511004928 HTH domain; Region: HTH_11; pfam08279 398511004929 PRD domain; Region: PRD; pfam00874 398511004930 PRD domain; Region: PRD; pfam00874 398511004931 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 398511004932 active site 398511004933 P-loop; other site 398511004934 phosphorylation site [posttranslational modification] 398511004935 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 398511004936 active site 398511004937 phosphorylation site [posttranslational modification] 398511004938 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 398511004939 active site 398511004940 P-loop; other site 398511004941 phosphorylation site [posttranslational modification] 398511004942 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 398511004943 potential frameshift: common BLAST hit: gi|52079596|ref|YP_078387.1| siderophore biosynthesis protein 398511004944 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 398511004945 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511004946 putative substrate translocation pore; other site 398511004947 potential frameshift: common BLAST hit: gi|108803258|ref|YP_643195.1| L-lysine 6-monooxygenase (NADPH) 398511004948 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 398511004949 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 398511004950 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 398511004951 IucA / IucC family; Region: IucA_IucC; pfam04183 398511004952 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 398511004953 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 398511004954 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 398511004955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511004956 catalytic residue [active] 398511004957 Cupin domain; Region: Cupin_2; cl17218 398511004958 Domain of unknown function (DUF4181); Region: DUF4181; pfam13789 398511004959 DinB superfamily; Region: DinB_2; pfam12867 398511004960 DinB family; Region: DinB; cl17821 398511004961 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398511004962 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398511004963 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_33; cd04692 398511004964 nudix motif; other site 398511004965 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398511004966 short chain dehydrogenase; Provisional; Region: PRK08303 398511004967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398511004968 NAD(P) binding site [chemical binding]; other site 398511004969 active site 398511004970 Predicted transcriptional regulator [Transcription]; Region: COG2378 398511004971 HTH domain; Region: HTH_11; pfam08279 398511004972 WYL domain; Region: WYL; pfam13280 398511004973 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 398511004974 S-adenosylmethionine binding site [chemical binding]; other site 398511004975 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 398511004976 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511004977 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 398511004978 DNA binding residues [nucleotide binding] 398511004979 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 398511004980 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 398511004981 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398511004982 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398511004983 Staygreen protein; Region: Staygreen; pfam12638 398511004984 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398511004985 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398511004986 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 398511004987 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 398511004988 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511004989 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 398511004990 DNA binding residues [nucleotide binding] 398511004991 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 398511004992 Na(+)/urea-polyamine cotransporter DUR3, and related proteins; solute-binding domain; Region: SLC5sbd_DUR3; cd11476 398511004993 Na binding site [ion binding]; other site 398511004994 Sporulation inhibitor A; Region: Sda; pfam08970 398511004995 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 398511004996 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 398511004997 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 398511004998 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398511004999 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 398511005000 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 398511005001 hypothetical protein; Provisional; Region: PRK06771 398511005002 HPP family; Region: HPP; pfam04982 398511005003 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 398511005004 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398511005005 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511005006 Coenzyme A binding pocket [chemical binding]; other site 398511005007 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398511005008 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398511005009 DNA-binding site [nucleotide binding]; DNA binding site 398511005010 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 398511005011 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511005012 homodimer interface [polypeptide binding]; other site 398511005013 catalytic residue [active] 398511005014 EamA-like transporter family; Region: EamA; pfam00892 398511005015 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398511005016 EamA-like transporter family; Region: EamA; pfam00892 398511005017 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398511005018 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 398511005019 dimer interface [polypeptide binding]; other site 398511005020 putative metal binding site [ion binding]; other site 398511005021 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398511005022 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398511005023 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 398511005024 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 398511005025 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398511005026 catalytic residue [active] 398511005027 EamA-like transporter family; Region: EamA; pfam00892 398511005028 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398511005029 EamA-like transporter family; Region: EamA; pfam00892 398511005030 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 398511005031 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398511005032 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 398511005033 metal-binding site [ion binding] 398511005034 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398511005035 Soluble P-type ATPase [General function prediction only]; Region: COG4087 398511005036 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 398511005037 dimerization interface [polypeptide binding]; other site 398511005038 putative DNA binding site [nucleotide binding]; other site 398511005039 putative Zn2+ binding site [ion binding]; other site 398511005040 Predicted transcriptional regulators [Transcription]; Region: COG1725 398511005041 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398511005042 DNA-binding site [nucleotide binding]; DNA binding site 398511005043 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398511005044 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398511005045 Walker A/P-loop; other site 398511005046 ATP binding site [chemical binding]; other site 398511005047 Q-loop/lid; other site 398511005048 ABC transporter signature motif; other site 398511005049 Walker B; other site 398511005050 D-loop; other site 398511005051 H-loop/switch region; other site 398511005052 potential frameshift: common BLAST hit: gi|23099259|ref|NP_692725.1| recombinase for Bh.Int 398511005053 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 398511005054 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 398511005055 agmatinase; Region: agmatinase; TIGR01230 398511005056 Agmatinase-like family; Region: Agmatinase-like; cd09990 398511005057 active site 398511005058 oligomer interface [polypeptide binding]; other site 398511005059 Mn binding site [ion binding]; other site 398511005060 imidazolonepropionase; Validated; Region: PRK09356 398511005061 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 398511005062 active site 398511005063 urocanate hydratase; Provisional; Region: PRK05414 398511005064 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511005065 Coenzyme A binding pocket [chemical binding]; other site 398511005066 H+ Antiporter protein; Region: 2A0121; TIGR00900 398511005067 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 398511005068 putative substrate translocation pore; other site 398511005069 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 398511005070 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 398511005071 active site 398511005072 metal binding site [ion binding]; metal-binding site 398511005073 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 398511005074 Spore germination protein; Region: Spore_permease; cl17796 398511005075 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 398511005076 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 398511005077 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 398511005078 Uncharacterized conserved protein [Function unknown]; Region: COG1359 398511005079 Response regulator receiver domain; Region: Response_reg; pfam00072 398511005080 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 398511005081 active site 398511005082 phosphorylation site [posttranslational modification] 398511005083 intermolecular recognition site; other site 398511005084 dimerization interface [polypeptide binding]; other site 398511005085 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398511005086 Predicted permease [General function prediction only]; Region: COG2056 398511005087 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 398511005088 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 398511005089 active sites [active] 398511005090 tetramer interface [polypeptide binding]; other site 398511005091 anti-terminator HutP; Provisional; Region: hutP; PRK03065 398511005092 RNA binding site [nucleotide binding]; other site 398511005093 hexamer interface [polypeptide binding]; other site 398511005094 Histidine-zinc binding site [chemical binding]; other site 398511005095 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 398511005096 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 398511005097 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511005098 Coenzyme A binding pocket [chemical binding]; other site 398511005099 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 398511005100 Fasciclin domain; Region: Fasciclin; pfam02469 398511005101 Septum formation topological specificity factor MinE; Region: MinE; cl00538 398511005102 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 398511005103 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398511005104 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 398511005105 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398511005106 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 398511005107 dinuclear metal binding motif [ion binding]; other site 398511005108 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 398511005109 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 398511005110 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398511005111 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 398511005112 Domain of unknown function (DUF4181); Region: DUF4181; pfam13789 398511005113 Mn-containing catalase [Inorganic ion transport and metabolism]; Region: COG3546 398511005114 dinuclear metal binding motif [ion binding]; other site 398511005115 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398511005116 NAD(P) binding site [chemical binding]; other site 398511005117 active site 398511005118 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398511005119 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398511005120 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398511005121 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 398511005122 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 398511005123 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 398511005124 Domain of unknown function DUF21; Region: DUF21; pfam01595 398511005125 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 398511005126 Transporter associated domain; Region: CorC_HlyC; smart01091 398511005127 Domain of unknown function (DUF368); Region: DUF368; pfam04018 398511005128 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398511005129 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 398511005130 FtsX-like permease family; Region: FtsX; pfam02687 398511005131 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398511005132 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398511005133 Walker A/P-loop; other site 398511005134 ATP binding site [chemical binding]; other site 398511005135 Q-loop/lid; other site 398511005136 ABC transporter signature motif; other site 398511005137 Walker B; other site 398511005138 D-loop; other site 398511005139 H-loop/switch region; other site 398511005140 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 398511005141 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 398511005142 Domain of unknown function DUF21; Region: DUF21; pfam01595 398511005143 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 398511005144 Transporter associated domain; Region: CorC_HlyC; smart01091 398511005145 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 398511005146 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398511005147 dimer interface [polypeptide binding]; other site 398511005148 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 398511005149 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398511005150 putative active site [active] 398511005151 putative metal binding site [ion binding]; other site 398511005152 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 398511005153 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398511005154 Walker A/P-loop; other site 398511005155 ATP binding site [chemical binding]; other site 398511005156 Q-loop/lid; other site 398511005157 ABC transporter signature motif; other site 398511005158 Walker B; other site 398511005159 D-loop; other site 398511005160 H-loop/switch region; other site 398511005161 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398511005162 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 398511005163 Walker A/P-loop; other site 398511005164 ATP binding site [chemical binding]; other site 398511005165 Q-loop/lid; other site 398511005166 ABC transporter signature motif; other site 398511005167 Walker B; other site 398511005168 D-loop; other site 398511005169 H-loop/switch region; other site 398511005170 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398511005171 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 398511005172 dimer interface [polypeptide binding]; other site 398511005173 conserved gate region; other site 398511005174 putative PBP binding loops; other site 398511005175 ABC-ATPase subunit interface; other site 398511005176 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398511005177 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 398511005178 dimer interface [polypeptide binding]; other site 398511005179 conserved gate region; other site 398511005180 ABC-ATPase subunit interface; other site 398511005181 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398511005182 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 398511005183 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 398511005184 trimer interface [polypeptide binding]; other site 398511005185 active site 398511005186 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398511005187 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 398511005188 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 398511005189 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 398511005190 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398511005191 NAD binding site [chemical binding]; other site 398511005192 catalytic residues [active] 398511005193 sulfite reductase subunit beta; Provisional; Region: PRK13504 398511005194 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398511005195 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398511005196 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 398511005197 Flavodoxin; Region: Flavodoxin_1; pfam00258 398511005198 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 398511005199 FAD binding pocket [chemical binding]; other site 398511005200 FAD binding motif [chemical binding]; other site 398511005201 catalytic residues [active] 398511005202 NAD binding pocket [chemical binding]; other site 398511005203 phosphate binding motif [ion binding]; other site 398511005204 beta-alpha-beta structure motif; other site 398511005205 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 398511005206 Part of AAA domain; Region: AAA_19; pfam13245 398511005207 Family description; Region: UvrD_C_2; pfam13538 398511005208 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398511005209 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 398511005210 DNA binding residues [nucleotide binding] 398511005211 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398511005212 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 398511005213 DNA binding residues [nucleotide binding] 398511005214 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 398511005215 GIY-YIG motif/motif A; other site 398511005216 active site 398511005217 catalytic site [active] 398511005218 putative DNA binding site [nucleotide binding]; other site 398511005219 metal binding site [ion binding]; metal-binding site 398511005220 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 398511005221 DNA-binding site [nucleotide binding]; DNA binding site 398511005222 RNA-binding motif; other site 398511005223 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 398511005224 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398511005225 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398511005226 DNA binding residues [nucleotide binding] 398511005227 H+ Antiporter protein; Region: 2A0121; TIGR00900 398511005228 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 398511005229 putative substrate translocation pore; other site 398511005230 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 398511005231 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 398511005232 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 398511005233 putative substrate translocation pore; other site 398511005234 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511005235 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 398511005236 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 398511005237 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 398511005238 Uncharacterized conserved protein [Function unknown]; Region: COG2135 398511005239 hypothetical protein; Provisional; Region: PRK07758 398511005240 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 398511005241 Lipase (class 2); Region: Lipase_2; pfam01674 398511005242 Uncharacterized conserved protein [Function unknown]; Region: COG1479 398511005243 Protein of unknown function DUF262; Region: DUF262; pfam03235 398511005244 Uncharacterized conserved protein [Function unknown]; Region: COG3472 398511005245 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 398511005246 nucleotide binding region [chemical binding]; other site 398511005247 ATP-binding site [chemical binding]; other site 398511005248 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398511005249 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 398511005250 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 398511005251 Walker A motif; other site 398511005252 ATP binding site [chemical binding]; other site 398511005253 Walker B motif; other site 398511005254 Helix-turn-helix domain; Region: HTH_38; pfam13936 398511005255 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398511005256 Integrase core domain; Region: rve; pfam00665 398511005257 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b3; cd09205 398511005258 PLD-like domain; Region: PLDc_2; pfam13091 398511005259 putative homodimer interface [polypeptide binding]; other site 398511005260 putative active site [active] 398511005261 catalytic site [active] 398511005262 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 398511005263 ATP binding site [chemical binding]; other site 398511005264 putative Mg++ binding site [ion binding]; other site 398511005265 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 398511005266 metal binding site [ion binding]; metal-binding site 398511005267 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 398511005268 nucleotide binding site/active site [active] 398511005269 HIT family signature motif; other site 398511005270 catalytic residue [active] 398511005271 potential frameshift: common BLAST hit: gi|229917516|ref|YP_002886162.1| type III restriction protein res subunit 398511005272 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 398511005273 active site 398511005274 8-oxo-dGMP binding site [chemical binding]; other site 398511005275 nudix motif; other site 398511005276 metal binding site [ion binding]; metal-binding site 398511005277 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 398511005278 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 398511005279 Walker A motif; other site 398511005280 ATP binding site [chemical binding]; other site 398511005281 Walker B motif; other site 398511005282 Uncharacterized conserved protein [Function unknown]; Region: COG3410 398511005283 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 398511005284 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 398511005285 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 398511005286 putative active site [active] 398511005287 catalytic site [active] 398511005288 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 398511005289 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 398511005290 nucleotide binding region [chemical binding]; other site 398511005291 ATP-binding site [chemical binding]; other site 398511005292 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 398511005293 DNA binding residues [nucleotide binding] 398511005294 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 398511005295 metal binding triad [ion binding]; metal-binding site 398511005296 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 398511005297 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398511005298 Zn2+ binding site [ion binding]; other site 398511005299 Mg2+ binding site [ion binding]; other site 398511005300 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 398511005301 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 398511005302 TPR motif; other site 398511005303 binding surface 398511005304 TPR repeat; Region: TPR_11; pfam13414 398511005305 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511005306 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; cl17355 398511005307 DNA binding site [nucleotide binding] 398511005308 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 398511005309 Peptidase family M28; Region: Peptidase_M28; pfam04389 398511005310 metal binding site [ion binding]; metal-binding site 398511005311 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 398511005312 metal binding site [ion binding]; metal-binding site 398511005313 ComK protein; Region: ComK; cl11560 398511005314 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 398511005315 non-specific DNA binding site [nucleotide binding]; other site 398511005316 salt bridge; other site 398511005317 sequence-specific DNA binding site [nucleotide binding]; other site 398511005318 Transposase domain (DUF772); Region: DUF772; pfam05598 398511005319 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398511005320 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 398511005321 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 398511005322 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 398511005323 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 398511005324 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 398511005325 Uncharacterized conserved protein [Function unknown]; Region: COG5444 398511005326 LXG domain of WXG superfamily; Region: LXG; pfam04740 398511005327 A pre-toxin domain with the TG motif; Region: PT-TG; pfam14449 398511005328 Predicted subunit of tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: COG2117 398511005329 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 398511005330 Ligand Binding Site [chemical binding]; other site 398511005331 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 398511005332 nudix motif; other site 398511005333 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398511005334 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 398511005335 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 398511005336 motif II; other site 398511005337 PAS domain S-box; Region: sensory_box; TIGR00229 398511005338 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 398511005339 putative active site [active] 398511005340 heme pocket [chemical binding]; other site 398511005341 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 398511005342 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 398511005343 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 398511005344 Protein of unknown function DUF86; Region: DUF86; pfam01934 398511005345 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 398511005346 active site 398511005347 NTP binding site [chemical binding]; other site 398511005348 metal binding triad [ion binding]; metal-binding site 398511005349 antibiotic binding site [chemical binding]; other site 398511005350 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 398511005351 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 398511005352 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; pfam09671 398511005353 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 398511005354 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 398511005355 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 398511005356 Na2 binding site [ion binding]; other site 398511005357 putative substrate binding site 1 [chemical binding]; other site 398511005358 Na binding site 1 [ion binding]; other site 398511005359 putative substrate binding site 2 [chemical binding]; other site 398511005360 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 398511005361 non-specific DNA binding site [nucleotide binding]; other site 398511005362 salt bridge; other site 398511005363 sequence-specific DNA binding site [nucleotide binding]; other site 398511005364 Nitroreductase family; Region: Nitroreductase; pfam00881 398511005365 dimer interface [polypeptide binding]; other site 398511005366 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 398511005367 dimer interface [polypeptide binding]; other site 398511005368 Macrolide 2'-Phosphotransferase (MPH2'). MPH2' is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase; Region: MPH2' cd05152 398511005369 Phosphotransferase enzyme family; Region: APH; pfam01636 398511005370 putative active site [active] 398511005371 putative substrate binding site [chemical binding]; other site 398511005372 ATP binding site [chemical binding]; other site 398511005373 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 398511005374 H+ Antiporter protein; Region: 2A0121; TIGR00900 398511005375 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 398511005376 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 398511005377 dimerization interface [polypeptide binding]; other site 398511005378 putative DNA binding site [nucleotide binding]; other site 398511005379 putative Zn2+ binding site [ion binding]; other site 398511005380 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 398511005381 active site 398511005382 zinc binding site [ion binding]; other site 398511005383 Predicted membrane protein [Function unknown]; Region: COG2259 398511005384 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 398511005385 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 398511005386 putative metal binding site [ion binding]; other site 398511005387 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 398511005388 active site 398511005389 metal binding site [ion binding]; metal-binding site 398511005390 Predicted transcriptional regulators [Transcription]; Region: COG1733 398511005391 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 398511005392 putative DNA binding site [nucleotide binding]; other site 398511005393 putative Zn2+ binding site [ion binding]; other site 398511005394 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 398511005395 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511005396 Coenzyme A binding pocket [chemical binding]; other site 398511005397 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 398511005398 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398511005399 active site 398511005400 topology modulation protein; Reviewed; Region: PRK08118 398511005401 AAA domain; Region: AAA_17; pfam13207 398511005402 KNTase C-terminal domain; Region: KNTase_C; pfam07827 398511005403 ABC-2 type transporter; Region: ABC2_membrane; cl17235 398511005404 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398511005405 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511005406 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 398511005407 Walker A/P-loop; other site 398511005408 ATP binding site [chemical binding]; other site 398511005409 Q-loop/lid; other site 398511005410 ABC transporter signature motif; other site 398511005411 Walker B; other site 398511005412 D-loop; other site 398511005413 H-loop/switch region; other site 398511005414 Helix-turn-helix domain; Region: HTH_18; pfam12833 398511005415 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398511005416 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 398511005417 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 398511005418 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 398511005419 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 398511005420 TPR motif; other site 398511005421 binding surface 398511005422 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398511005423 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 398511005424 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 398511005425 stage V sporulation protein K; Region: spore_V_K; TIGR02881 398511005426 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 398511005427 Walker A motif; other site 398511005428 ATP binding site [chemical binding]; other site 398511005429 Walker B motif; other site 398511005430 arginine finger; other site 398511005431 stage V sporulation protein K; Region: spore_V_K; TIGR02881 398511005432 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 398511005433 Walker A motif; other site 398511005434 ATP binding site [chemical binding]; other site 398511005435 Walker B motif; other site 398511005436 arginine finger; other site 398511005437 stage V sporulation protein K; Region: spore_V_K; TIGR02881 398511005438 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 398511005439 Walker A motif; other site 398511005440 ATP binding site [chemical binding]; other site 398511005441 Walker B motif; other site 398511005442 arginine finger; other site 398511005443 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 398511005444 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 398511005445 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511005446 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 398511005447 DNA binding residues [nucleotide binding] 398511005448 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 398511005449 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 398511005450 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398511005451 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398511005452 NAD(P) binding site [chemical binding]; other site 398511005453 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398511005454 Beta-lactamase; Region: Beta-lactamase; pfam00144 398511005455 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 398511005456 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398511005457 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398511005458 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 398511005459 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 398511005460 acyl-activating enzyme (AAE) consensus motif; other site 398511005461 putative AMP binding site [chemical binding]; other site 398511005462 putative active site [active] 398511005463 putative CoA binding site [chemical binding]; other site 398511005464 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 398511005465 active site 398511005466 putative acyltransferase; Provisional; Region: PRK05790 398511005467 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398511005468 dimer interface [polypeptide binding]; other site 398511005469 active site 398511005470 Predicted transcriptional regulators [Transcription]; Region: COG1695 398511005471 Transcriptional regulator PadR-like family; Region: PadR; cl17335 398511005472 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 398511005473 classical (c) SDRs; Region: SDR_c; cd05233 398511005474 NAD(P) binding site [chemical binding]; other site 398511005475 active site 398511005476 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398511005477 Beta-lactamase; Region: Beta-lactamase; pfam00144 398511005478 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398511005479 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 398511005480 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 398511005481 putative DNA binding site [nucleotide binding]; other site 398511005482 putative Zn2+ binding site [ion binding]; other site 398511005483 AsnC family; Region: AsnC_trans_reg; pfam01037 398511005484 CAAX protease self-immunity; Region: Abi; pfam02517 398511005485 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 398511005486 metal ion-dependent adhesion site (MIDAS); other site 398511005487 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398511005488 Beta-lactamase; Region: Beta-lactamase; pfam00144 398511005489 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 398511005490 Domain of unknown function DUF21; Region: DUF21; pfam01595 398511005491 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 398511005492 Transporter associated domain; Region: CorC_HlyC; smart01091 398511005493 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398511005494 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 398511005495 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398511005496 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 398511005497 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398511005498 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511005499 Walker A/P-loop; other site 398511005500 ATP binding site [chemical binding]; other site 398511005501 Q-loop/lid; other site 398511005502 ABC transporter signature motif; other site 398511005503 Walker B; other site 398511005504 D-loop; other site 398511005505 H-loop/switch region; other site 398511005506 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398511005507 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 398511005508 active site 398511005509 phosphorylation site [posttranslational modification] 398511005510 intermolecular recognition site; other site 398511005511 dimerization interface [polypeptide binding]; other site 398511005512 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 398511005513 DNA binding residues [nucleotide binding] 398511005514 dimerization interface [polypeptide binding]; other site 398511005515 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398511005516 Histidine kinase; Region: HisKA_3; pfam07730 398511005517 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 398511005518 ATP binding site [chemical binding]; other site 398511005519 Mg2+ binding site [ion binding]; other site 398511005520 G-X-G motif; other site 398511005521 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 398511005522 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 398511005523 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398511005524 Uncharacterized conserved protein [Function unknown]; Region: COG1284 398511005525 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398511005526 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 398511005527 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 398511005528 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398511005529 acyl-activating enzyme (AAE) consensus motif; other site 398511005530 AMP binding site [chemical binding]; other site 398511005531 active site 398511005532 CoA binding site [chemical binding]; other site 398511005533 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 398511005534 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 398511005535 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 398511005536 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 398511005537 Uncharacterized conserved protein [Function unknown]; Region: COG3589 398511005538 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 398511005539 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 398511005540 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 398511005541 active site turn [active] 398511005542 phosphorylation site [posttranslational modification] 398511005543 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 398511005544 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 398511005545 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 398511005546 putative active site [active] 398511005547 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398511005548 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398511005549 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 398511005550 putative active site [active] 398511005551 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 398511005552 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 398511005553 active site 398511005554 metal binding site [ion binding]; metal-binding site 398511005555 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 398511005556 Walker A motif; other site 398511005557 ATP binding site [chemical binding]; other site 398511005558 Walker B motif; other site 398511005559 Helix-turn-helix domain; Region: HTH_36; pfam13730 398511005560 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 398511005561 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_34; cd04693 398511005562 nudix motif; other site 398511005563 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 398511005564 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 398511005565 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 398511005566 active site 398511005567 catalytic residues [active] 398511005568 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 398511005569 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 398511005570 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 398511005571 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398511005572 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398511005573 DNA binding site [nucleotide binding] 398511005574 domain linker motif; other site 398511005575 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 398511005576 dimerization interface [polypeptide binding]; other site 398511005577 ligand binding site [chemical binding]; other site 398511005578 Protein of unknown function, DUF624; Region: DUF624; cl02369 398511005579 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398511005580 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 398511005581 dimer interface [polypeptide binding]; other site 398511005582 conserved gate region; other site 398511005583 putative PBP binding loops; other site 398511005584 ABC-ATPase subunit interface; other site 398511005585 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 398511005586 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 398511005587 dimer interface [polypeptide binding]; other site 398511005588 putative PBP binding loops; other site 398511005589 ABC-ATPase subunit interface; other site 398511005590 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398511005591 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 398511005592 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 398511005593 beta-galactosidase; Region: BGL; TIGR03356 398511005594 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 398511005595 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 398511005596 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 398511005597 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 398511005598 Multicopper oxidase; Region: Cu-oxidase; pfam00394 398511005599 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 398511005600 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398511005601 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 398511005602 metal-binding site [ion binding] 398511005603 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398511005604 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 398511005605 metal-binding site [ion binding] 398511005606 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398511005607 Soluble P-type ATPase [General function prediction only]; Region: COG4087 398511005608 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 398511005609 metal-binding site [ion binding] 398511005610 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 398511005611 putative homodimer interface [polypeptide binding]; other site 398511005612 putative homotetramer interface [polypeptide binding]; other site 398511005613 putative allosteric switch controlling residues; other site 398511005614 putative metal binding site [ion binding]; other site 398511005615 putative homodimer-homodimer interface [polypeptide binding]; other site 398511005616 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398511005617 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398511005618 Walker A/P-loop; other site 398511005619 ATP binding site [chemical binding]; other site 398511005620 Q-loop/lid; other site 398511005621 ABC transporter signature motif; other site 398511005622 Walker B; other site 398511005623 D-loop; other site 398511005624 H-loop/switch region; other site 398511005625 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 398511005626 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 398511005627 putative ligand binding residues [chemical binding]; other site 398511005628 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 398511005629 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 398511005630 ABC-ATPase subunit interface; other site 398511005631 dimer interface [polypeptide binding]; other site 398511005632 putative PBP binding regions; other site 398511005633 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398511005634 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 398511005635 ABC-ATPase subunit interface; other site 398511005636 dimer interface [polypeptide binding]; other site 398511005637 putative PBP binding regions; other site 398511005638 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398511005639 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 398511005640 dimer interface [polypeptide binding]; other site 398511005641 phosphorylation site [posttranslational modification] 398511005642 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 398511005643 ATP binding site [chemical binding]; other site 398511005644 Mg2+ binding site [ion binding]; other site 398511005645 G-X-G motif; other site 398511005646 PAS domain; Region: PAS_9; pfam13426 398511005647 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398511005648 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 398511005649 dimer interface [polypeptide binding]; other site 398511005650 phosphorylation site [posttranslational modification] 398511005651 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 398511005652 ATP binding site [chemical binding]; other site 398511005653 Mg2+ binding site [ion binding]; other site 398511005654 G-X-G motif; other site 398511005655 BCCT family transporter; Region: BCCT; pfam02028 398511005656 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 398511005657 classical (c) SDRs; Region: SDR_c; cd05233 398511005658 NAD(P) binding site [chemical binding]; other site 398511005659 active site 398511005660 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 398511005661 Sodium Bile acid symporter family; Region: SBF; cl17470 398511005662 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 398511005663 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 398511005664 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 398511005665 Malic enzyme, N-terminal domain; Region: malic; pfam00390 398511005666 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 398511005667 putative NAD(P) binding site [chemical binding]; other site 398511005668 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 398511005669 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 398511005670 intermolecular recognition site; other site 398511005671 active site 398511005672 dimerization interface [polypeptide binding]; other site 398511005673 HTH domain; Region: HTH_11; pfam08279 398511005674 sensory histidine kinase DcuS; Provisional; Region: PRK11086 398511005675 PAS domain; Region: PAS; smart00091 398511005676 putative active site [active] 398511005677 heme pocket [chemical binding]; other site 398511005678 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 398511005679 ATP binding site [chemical binding]; other site 398511005680 Mg2+ binding site [ion binding]; other site 398511005681 G-X-G motif; other site 398511005682 DNA polymerase IV; Reviewed; Region: PRK03103 398511005683 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 398511005684 active site 398511005685 DNA binding site [nucleotide binding] 398511005686 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 398511005687 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 398511005688 Ligand Binding Site [chemical binding]; other site 398511005689 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 398511005690 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 398511005691 Sulfate transporter family; Region: Sulfate_transp; pfam00916 398511005692 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 398511005693 Helix-turn-helix domain; Region: HTH_17; pfam12728 398511005694 YolD-like protein; Region: YolD; pfam08863 398511005695 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398511005696 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511005697 Coenzyme A binding pocket [chemical binding]; other site 398511005698 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 398511005699 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398511005700 DinB family; Region: DinB; cl17821 398511005701 DinB superfamily; Region: DinB_2; pfam12867 398511005702 hypothetical protein; Provisional; Region: PRK08204 398511005703 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 398511005704 active site 398511005705 Predicted permeases [General function prediction only]; Region: COG0679 398511005706 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398511005707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398511005708 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 398511005709 dimerization interface [polypeptide binding]; other site 398511005710 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398511005711 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398511005712 Coenzyme A binding pocket [chemical binding]; other site 398511005713 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 398511005714 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398511005715 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398511005716 PspC domain; Region: PspC; pfam04024 398511005717 Erythromycin esterase; Region: Erythro_esteras; cl17110 398511005718 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 398511005719 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 398511005720 motif II; other site 398511005721 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 398511005722 active site 398511005723 Phosphotransferase enzyme family; Region: APH; pfam01636 398511005724 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 398511005725 active site 398511005726 substrate binding site [chemical binding]; other site 398511005727 ATP binding site [chemical binding]; other site 398511005728 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398511005729 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398511005730 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511005731 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398511005732 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398511005733 Coenzyme A binding pocket [chemical binding]; other site 398511005734 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 398511005735 DinB superfamily; Region: DinB_2; pfam12867 398511005736 Predicted ATPase [General function prediction only]; Region: COG3910 398511005737 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511005738 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511005739 Walker A/P-loop; other site 398511005740 Walker A/P-loop; other site 398511005741 ATP binding site [chemical binding]; other site 398511005742 ATP binding site [chemical binding]; other site 398511005743 Q-loop/lid; other site 398511005744 ABC transporter signature motif; other site 398511005745 Walker B; other site 398511005746 D-loop; other site 398511005747 H-loop/switch region; other site 398511005748 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 398511005749 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 398511005750 Domain of unknown function (DUF4181); Region: DUF4181; pfam13789 398511005751 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 398511005752 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398511005753 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398511005754 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 398511005755 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 398511005756 Predicted membrane protein [Function unknown]; Region: COG2323 398511005757 hypothetical protein; Provisional; Region: PRK02947 398511005758 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 398511005759 putative active site [active] 398511005760 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398511005761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398511005762 DNA-binding site [nucleotide binding]; DNA binding site 398511005763 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 398511005764 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 398511005765 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 398511005766 active site 398511005767 trimer interface [polypeptide binding]; other site 398511005768 allosteric site; other site 398511005769 active site lid [active] 398511005770 hexamer (dimer of trimers) interface [polypeptide binding]; other site 398511005771 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 398511005772 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 398511005773 active site 398511005774 dimer interface [polypeptide binding]; other site 398511005775 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 398511005776 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 398511005777 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 398511005778 active site turn [active] 398511005779 phosphorylation site [posttranslational modification] 398511005780 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 398511005781 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511005782 Coenzyme A binding pocket [chemical binding]; other site 398511005783 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 398511005784 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 398511005785 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 398511005786 putative NAD(P) binding site [chemical binding]; other site 398511005787 active site 398511005788 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 398511005789 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398511005790 ATP-grasp domain; Region: ATP-grasp; pfam02222 398511005791 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 398511005792 Na binding site [ion binding]; other site 398511005793 Protein of unknown function (DUF997); Region: DUF997; pfam06196 398511005794 VanW like protein; Region: VanW; pfam04294 398511005795 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 398511005796 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398511005797 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398511005798 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 398511005799 active site 398511005800 Uncharacterized conserved protein [Function unknown]; Region: COG0432 398511005801 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 398511005802 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 398511005803 putative DNA binding site [nucleotide binding]; other site 398511005804 putative homodimer interface [polypeptide binding]; other site 398511005805 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK09633 398511005806 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 398511005807 DNA binding site [nucleotide binding] 398511005808 active site 398511005809 The Oligonucleotide/oligosaccharide binding (OB)-fold domain is a DNA-binding module that is part of the catalytic core unit of ATP dependent DNA ligases; Region: OBF_DNA_ligase_family; cl08424 398511005810 DNA binding site [nucleotide binding] 398511005811 LigD_Pol_like_3: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 3. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_3; cd04866 398511005812 nucleotide binding site [chemical binding]; other site 398511005813 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 398511005814 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398511005815 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 398511005816 Walker A/P-loop; other site 398511005817 ATP binding site [chemical binding]; other site 398511005818 Q-loop/lid; other site 398511005819 ABC transporter signature motif; other site 398511005820 Walker B; other site 398511005821 D-loop; other site 398511005822 H-loop/switch region; other site 398511005823 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398511005824 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 398511005825 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511005826 Walker A/P-loop; other site 398511005827 ATP binding site [chemical binding]; other site 398511005828 Q-loop/lid; other site 398511005829 ABC transporter signature motif; other site 398511005830 Walker B; other site 398511005831 D-loop; other site 398511005832 H-loop/switch region; other site 398511005833 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 398511005834 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 398511005835 ATP binding site [chemical binding]; other site 398511005836 Mg++ binding site [ion binding]; other site 398511005837 motif III; other site 398511005838 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 398511005839 nucleotide binding region [chemical binding]; other site 398511005840 ATP-binding site [chemical binding]; other site 398511005841 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 398511005842 RNA binding site [nucleotide binding]; other site 398511005843 Uncharacterized conserved protein [Function unknown]; Region: COG5276 398511005844 LVIVD repeat; Region: LVIVD; pfam08309 398511005845 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 398511005846 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 398511005847 putative dimer interface [polypeptide binding]; other site 398511005848 active site pocket [active] 398511005849 putative cataytic base [active] 398511005850 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398511005851 HAMP domain; Region: HAMP; pfam00672 398511005852 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 398511005853 dimer interface [polypeptide binding]; other site 398511005854 phosphorylation site [posttranslational modification] 398511005855 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 398511005856 ATP binding site [chemical binding]; other site 398511005857 Mg2+ binding site [ion binding]; other site 398511005858 G-X-G motif; other site 398511005859 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511005860 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 398511005861 active site 398511005862 phosphorylation site [posttranslational modification] 398511005863 intermolecular recognition site; other site 398511005864 dimerization interface [polypeptide binding]; other site 398511005865 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 398511005866 DNA binding site [nucleotide binding] 398511005867 BNR repeat-like domain; Region: BNR_2; pfam13088 398511005868 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 398511005869 heme-binding site [chemical binding]; other site 398511005870 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398511005871 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398511005872 dimer interface [polypeptide binding]; other site 398511005873 putative CheW interface [polypeptide binding]; other site 398511005874 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 398511005875 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 398511005876 NAD binding site [chemical binding]; other site 398511005877 homodimer interface [polypeptide binding]; other site 398511005878 homotetramer interface [polypeptide binding]; other site 398511005879 active site 398511005880 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 398511005881 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398511005882 dimer interface [polypeptide binding]; other site 398511005883 active site 398511005884 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398511005885 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398511005886 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398511005887 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398511005888 active site 398511005889 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398511005890 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 398511005891 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 398511005892 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 398511005893 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 398511005894 active site 398511005895 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511005896 Coenzyme A binding pocket [chemical binding]; other site 398511005897 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 398511005898 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 398511005899 Coenzyme A binding pocket [chemical binding]; other site 398511005900 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 398511005901 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 398511005902 motif II; other site 398511005903 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 398511005904 hypothetical protein; Provisional; Region: PRK12378 398511005905 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 398511005906 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 398511005907 active site 398511005908 putative catalytic site [active] 398511005909 DNA binding site [nucleotide binding] 398511005910 putative phosphate binding site [ion binding]; other site 398511005911 metal binding site A [ion binding]; metal-binding site 398511005912 AP binding site [nucleotide binding]; other site 398511005913 metal binding site B [ion binding]; metal-binding site 398511005914 acetylornithine deacetylase; Validated; Region: PRK06915 398511005915 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 398511005916 metal binding site [ion binding]; metal-binding site 398511005917 dimer interface [polypeptide binding]; other site 398511005918 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 398511005919 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 398511005920 hypothetical protein; Provisional; Region: PRK06917 398511005921 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 398511005922 inhibitor-cofactor binding pocket; inhibition site 398511005923 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511005924 catalytic residue [active] 398511005925 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 398511005926 toxin interface [polypeptide binding]; other site 398511005927 Zn binding site [ion binding]; other site 398511005928 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 398511005929 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 398511005930 FeS/SAM binding site; other site 398511005931 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 398511005932 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 398511005933 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398511005934 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 398511005935 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 398511005936 putative active site [active] 398511005937 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 398511005938 Walker A motif; other site 398511005939 ATP binding site [chemical binding]; other site 398511005940 Walker B motif; other site 398511005941 arginine finger; other site 398511005942 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398511005943 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 398511005944 active site 398511005945 Zn binding site [ion binding]; other site 398511005946 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 398511005947 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398511005948 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 398511005949 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 398511005950 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 398511005951 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 398511005952 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 398511005953 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 398511005954 potential frameshift: common BLAST hit: gi|157692592|ref|YP_001487054.1| gamma-glutamyl kinase 398511005955 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 398511005956 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 398511005957 putative catalytic cysteine [active] 398511005958 Protein of unknown function (DUF3900); Region: DUF3900; pfam13039 398511005959 Domain of unknown function (DUF3898); Region: DUF3898; pfam13037 398511005960 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 398511005961 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 398511005962 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 398511005963 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 398511005964 active site 398511005965 DNA binding site [nucleotide binding] 398511005966 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398511005967 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 398511005968 NAD(P) binding site [chemical binding]; other site 398511005969 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 398511005970 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 398511005971 active site 398511005972 oligoendopeptidase F; Region: pepF; TIGR00181 398511005973 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 398511005974 active site 398511005975 Zn binding site [ion binding]; other site 398511005976 60S ribosomal protein L4-1; Provisional; Region: PLN00185 398511005977 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 398511005978 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 398511005979 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 398511005980 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 398511005981 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511005982 putative substrate translocation pore; other site 398511005983 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398511005984 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 398511005985 aspartate aminotransferase; Provisional; Region: PRK06836 398511005986 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 398511005987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511005988 homodimer interface [polypeptide binding]; other site 398511005989 catalytic residue [active] 398511005990 PGAP1-like protein; Region: PGAP1; pfam07819 398511005991 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398511005992 Isochorismatase family; Region: Isochorismatase; pfam00857 398511005993 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 398511005994 catalytic triad [active] 398511005995 conserved cis-peptide bond; other site 398511005996 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 398511005997 bacillithiol biosynthesis deacetylase BshB2; Region: thiol_BshB2; TIGR04000 398511005998 5'-3' exonuclease; Region: 53EXOc; smart00475 398511005999 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 398511006000 active site 398511006001 metal binding site 1 [ion binding]; metal-binding site 398511006002 putative 5' ssDNA interaction site; other site 398511006003 metal binding site 3; metal-binding site 398511006004 metal binding site 2 [ion binding]; metal-binding site 398511006005 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 398511006006 putative DNA binding site [nucleotide binding]; other site 398511006007 putative metal binding site [ion binding]; other site 398511006008 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 398511006009 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 398511006010 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398511006011 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 398511006012 putative active site [active] 398511006013 putative metal binding site [ion binding]; other site 398511006014 Divergent PAP2 family; Region: DUF212; pfam02681 398511006015 SCP-2 sterol transfer family; Region: SCP2; pfam02036 398511006016 bacillithiol system protein YtxJ; Region: B_thiol_YtxJ; TIGR04019 398511006017 EDD domain protein, DegV family; Region: DegV; TIGR00762 398511006018 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 398511006019 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 398511006020 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 398511006021 ATP binding site [chemical binding]; other site 398511006022 putative Mg++ binding site [ion binding]; other site 398511006023 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 398511006024 nucleotide binding region [chemical binding]; other site 398511006025 ATP-binding site [chemical binding]; other site 398511006026 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 398511006027 HRDC domain; Region: HRDC; pfam00570 398511006028 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398511006029 DNA binding site [nucleotide binding] 398511006030 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 398511006031 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398511006032 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398511006033 ABC transporter; Region: ABC_tran_2; pfam12848 398511006034 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398511006035 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 398511006036 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 398511006037 active site 398511006038 HIGH motif; other site 398511006039 dimer interface [polypeptide binding]; other site 398511006040 KMSKS motif; other site 398511006041 EamA-like transporter family; Region: EamA; pfam00892 398511006042 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398511006043 EamA-like transporter family; Region: EamA; pfam00892 398511006044 Protein of unknown function (DUF3970); Region: DUF3970; pfam13113 398511006045 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 398511006046 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 398511006047 BCCT family transporter; Region: BCCT; pfam02028 398511006048 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 398511006049 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 398511006050 E3 interaction surface; other site 398511006051 lipoyl attachment site [posttranslational modification]; other site 398511006052 e3 binding domain; Region: E3_binding; pfam02817 398511006053 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 398511006054 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 398511006055 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 398511006056 TPP-binding site [chemical binding]; other site 398511006057 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 398511006058 dimer interface [polypeptide binding]; other site 398511006059 PYR/PP interface [polypeptide binding]; other site 398511006060 TPP binding site [chemical binding]; other site 398511006061 Sulphur transport; Region: Sulf_transp; pfam04143 398511006062 Sulphur transport; Region: Sulf_transp; pfam04143 398511006063 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 398511006064 dimer interface [polypeptide binding]; other site 398511006065 FMN binding site [chemical binding]; other site 398511006066 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 398511006067 S-adenosylmethionine binding site [chemical binding]; other site 398511006068 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 398511006069 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398511006070 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 398511006071 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398511006072 catalytic residue [active] 398511006073 YusW-like protein; Region: YusW; pfam14039 398511006074 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 398511006075 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 398511006076 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511006077 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511006078 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 398511006079 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 398511006080 pentamer interface [polypeptide binding]; other site 398511006081 dodecaamer interface [polypeptide binding]; other site 398511006082 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 398511006083 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 398511006084 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 398511006085 FeS/SAM binding site; other site 398511006086 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 398511006087 active site 398511006088 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 398511006089 Ligand Binding Site [chemical binding]; other site 398511006090 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 398511006091 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 398511006092 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 398511006093 structural protein V1; Reviewed; Region: V1; PHA02513 398511006094 Cation efflux family; Region: Cation_efflux; cl00316 398511006095 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398511006096 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398511006097 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 398511006098 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398511006099 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398511006100 methionine sulfoxide reductase A; Provisional; Region: PRK14054 398511006101 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 398511006102 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 398511006103 Protein of unknown function (DUF2642); Region: DUF2642; pfam10842 398511006104 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cd00455 398511006105 active site 398511006106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4841 398511006107 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 398511006108 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398511006109 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 398511006110 active site 398511006111 phosphorylation site [posttranslational modification] 398511006112 intermolecular recognition site; other site 398511006113 dimerization interface [polypeptide binding]; other site 398511006114 SurA N-terminal domain; Region: SurA_N_3; cl07813 398511006115 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 398511006116 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 398511006117 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 398511006118 active site 398511006119 dimer interface [polypeptide binding]; other site 398511006120 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398511006121 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 398511006122 putative dimer interface [polypeptide binding]; other site 398511006123 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 398511006124 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 398511006125 putative substrate translocation pore; other site 398511006126 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 398511006127 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 398511006128 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 398511006129 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398511006130 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 398511006131 dimerization interface [polypeptide binding]; other site 398511006132 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398511006133 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398511006134 Zn2+ binding site [ion binding]; other site 398511006135 Mg2+ binding site [ion binding]; other site 398511006136 homoserine O-succinyltransferase; Provisional; Region: PRK05368 398511006137 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 398511006138 proposed active site lysine [active] 398511006139 conserved cys residue [active] 398511006140 hypothetical protein; Validated; Region: PRK07708 398511006141 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 398511006142 RNA/DNA hybrid binding site [nucleotide binding]; other site 398511006143 active site 398511006144 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 398511006145 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 398511006146 active site 398511006147 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 398511006148 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 398511006149 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 398511006150 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 398511006151 homodimer interface [polypeptide binding]; other site 398511006152 NAD binding pocket [chemical binding]; other site 398511006153 ATP binding pocket [chemical binding]; other site 398511006154 Mg binding site [ion binding]; other site 398511006155 active-site loop [active] 398511006156 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 398511006157 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 398511006158 active site 398511006159 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 398511006160 stage V sporulation protein K; Region: spore_V_K; TIGR02881 398511006161 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 398511006162 Walker A motif; other site 398511006163 ATP binding site [chemical binding]; other site 398511006164 Walker B motif; other site 398511006165 arginine finger; other site 398511006166 stage V sporulation protein K; Region: spore_V_K; TIGR02881 398511006167 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 398511006168 Walker A motif; other site 398511006169 ATP binding site [chemical binding]; other site 398511006170 Walker B motif; other site 398511006171 arginine finger; other site 398511006172 EamA-like transporter family; Region: EamA; pfam00892 398511006173 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398511006174 EamA-like transporter family; Region: EamA; pfam00892 398511006175 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 398511006176 Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]; Region: CopC; COG2372 398511006177 Uncharacterized conserved protein [Function unknown]; Region: COG0398 398511006178 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 398511006179 VanZ like family; Region: VanZ; pfam04892 398511006180 acid-soluble spore protein N; Provisional; Region: sspN; PRK09398 398511006181 Protein of unknown function (DUF3901); Region: DUF3901; pfam13040 398511006182 Predicted membrane protein [Function unknown]; Region: COG2323 398511006183 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 398511006184 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398511006185 Protein export membrane protein; Region: SecD_SecF; cl14618 398511006186 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398511006187 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 398511006188 putative DNA binding site [nucleotide binding]; other site 398511006189 putative Zn2+ binding site [ion binding]; other site 398511006190 aconitate hydratase; Validated; Region: PRK09277 398511006191 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 398511006192 substrate binding site [chemical binding]; other site 398511006193 ligand binding site [chemical binding]; other site 398511006194 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 398511006195 substrate binding site [chemical binding]; other site 398511006196 acid-soluble spore protein O; Provisional; Region: sspO; PRK02984 398511006197 acid-soluble spore protein P; Provisional; Region: sspP; PRK09399 398511006198 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 398511006199 selenocysteine synthase; Provisional; Region: PRK04311 398511006200 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 398511006201 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398511006202 catalytic residue [active] 398511006203 Rdx family; Region: Rdx; pfam10262 398511006204 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 398511006205 dimerization interface [polypeptide binding]; other site 398511006206 putative ATP binding site [chemical binding]; other site 398511006207 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 398511006208 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 398511006209 Walker A/P-loop; other site 398511006210 ATP binding site [chemical binding]; other site 398511006211 Q-loop/lid; other site 398511006212 ABC transporter signature motif; other site 398511006213 Walker B; other site 398511006214 D-loop; other site 398511006215 H-loop/switch region; other site 398511006216 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 398511006217 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 398511006218 dimer interface [polypeptide binding]; other site 398511006219 conserved gate region; other site 398511006220 ABC-ATPase subunit interface; other site 398511006221 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 398511006222 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398511006223 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 398511006224 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398511006225 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 398511006226 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 398511006227 G1 box; other site 398511006228 putative GEF interaction site [polypeptide binding]; other site 398511006229 GTP/Mg2+ binding site [chemical binding]; other site 398511006230 Switch I region; other site 398511006231 G2 box; other site 398511006232 G3 box; other site 398511006233 Switch II region; other site 398511006234 G4 box; other site 398511006235 G5 box; other site 398511006236 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 398511006237 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 398511006238 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 398511006239 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 398511006240 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 398511006241 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 398511006242 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 398511006243 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398511006244 putative active site [active] 398511006245 putative metal binding site [ion binding]; other site 398511006246 Transglycosylase; Region: Transgly; pfam00912 398511006247 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 398511006248 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398511006249 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 398511006250 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398511006251 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398511006252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 398511006253 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511006254 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398511006255 Coenzyme A binding pocket [chemical binding]; other site 398511006256 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 398511006257 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 398511006258 hexamer interface [polypeptide binding]; other site 398511006259 ligand binding site [chemical binding]; other site 398511006260 putative active site [active] 398511006261 NAD(P) binding site [chemical binding]; other site 398511006262 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 398511006263 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 398511006264 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 398511006265 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 398511006266 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398511006267 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 398511006268 Walker A/P-loop; other site 398511006269 ATP binding site [chemical binding]; other site 398511006270 Q-loop/lid; other site 398511006271 ABC transporter signature motif; other site 398511006272 Walker B; other site 398511006273 D-loop; other site 398511006274 H-loop/switch region; other site 398511006275 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398511006276 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 398511006277 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511006278 Walker A/P-loop; other site 398511006279 ATP binding site [chemical binding]; other site 398511006280 Q-loop/lid; other site 398511006281 ABC transporter signature motif; other site 398511006282 Walker B; other site 398511006283 D-loop; other site 398511006284 H-loop/switch region; other site 398511006285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 398511006286 Protein of unknown function (DUF2522); Region: DUF2522; pfam10747 398511006287 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 398511006288 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 398511006289 TPP-binding site [chemical binding]; other site 398511006290 dimer interface [polypeptide binding]; other site 398511006291 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 398511006292 PYR/PP interface [polypeptide binding]; other site 398511006293 dimer interface [polypeptide binding]; other site 398511006294 TPP binding site [chemical binding]; other site 398511006295 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398511006296 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 398511006297 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 398511006298 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 398511006299 catalytic residues [active] 398511006300 catalytic nucleophile [active] 398511006301 LexA repressor; Validated; Region: PRK00215 398511006302 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 398511006303 putative DNA binding site [nucleotide binding]; other site 398511006304 putative Zn2+ binding site [ion binding]; other site 398511006305 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 398511006306 Catalytic site [active] 398511006307 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 398511006308 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 398511006309 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 398511006310 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 398511006311 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398511006312 DNA binding residues [nucleotide binding] 398511006313 putative dimer interface [polypeptide binding]; other site 398511006314 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 398511006315 Aluminium resistance protein; Region: Alum_res; pfam06838 398511006316 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 398511006317 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 398511006318 HflX GTPase family; Region: HflX; cd01878 398511006319 G1 box; other site 398511006320 GTP/Mg2+ binding site [chemical binding]; other site 398511006321 Switch I region; other site 398511006322 G2 box; other site 398511006323 G3 box; other site 398511006324 Switch II region; other site 398511006325 G4 box; other site 398511006326 G5 box; other site 398511006327 stage V sporulation protein K; Region: spore_V_K; TIGR02881 398511006328 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 398511006329 Walker A motif; other site 398511006330 ATP binding site [chemical binding]; other site 398511006331 Walker B motif; other site 398511006332 arginine finger; other site 398511006333 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 398511006334 active site 398511006335 Int/Topo IB signature motif; other site 398511006336 DNA binding site [nucleotide binding] 398511006337 bacterial Hfq-like; Region: Hfq; cd01716 398511006338 hexamer interface [polypeptide binding]; other site 398511006339 Sm1 motif; other site 398511006340 RNA binding site [nucleotide binding]; other site 398511006341 Sm2 motif; other site 398511006342 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 398511006343 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 398511006344 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 398511006345 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 398511006346 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 398511006347 ATP binding site [chemical binding]; other site 398511006348 Mg2+ binding site [ion binding]; other site 398511006349 G-X-G motif; other site 398511006350 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 398511006351 ATP binding site [chemical binding]; other site 398511006352 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 398511006353 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 398511006354 MutS domain I; Region: MutS_I; pfam01624 398511006355 MutS domain II; Region: MutS_II; pfam05188 398511006356 MutS domain III; Region: MutS_III; pfam05192 398511006357 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 398511006358 Walker A/P-loop; other site 398511006359 ATP binding site [chemical binding]; other site 398511006360 Q-loop/lid; other site 398511006361 ABC transporter signature motif; other site 398511006362 Walker B; other site 398511006363 D-loop; other site 398511006364 H-loop/switch region; other site 398511006365 Outer spore coat protein E (CotE); Region: CotE; pfam10628 398511006366 Predicted membrane protein [Function unknown]; Region: COG4550 398511006367 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 398511006368 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 398511006369 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 398511006370 FeS/SAM binding site; other site 398511006371 TRAM domain; Region: TRAM; pfam01938 398511006372 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 398511006373 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 398511006374 TPP-binding site [chemical binding]; other site 398511006375 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 398511006376 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 398511006377 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 398511006378 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 398511006379 dimer interface [polypeptide binding]; other site 398511006380 PYR/PP interface [polypeptide binding]; other site 398511006381 TPP binding site [chemical binding]; other site 398511006382 substrate binding site [chemical binding]; other site 398511006383 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 398511006384 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 398511006385 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398511006386 putative active site [active] 398511006387 metal binding site [ion binding]; metal-binding site 398511006388 homodimer binding site [polypeptide binding]; other site 398511006389 phosphodiesterase; Provisional; Region: PRK12704 398511006390 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398511006391 Zn2+ binding site [ion binding]; other site 398511006392 Mg2+ binding site [ion binding]; other site 398511006393 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511006394 Walker B; other site 398511006395 D-loop; other site 398511006396 H-loop/switch region; other site 398511006397 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 398511006398 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511006399 Walker A/P-loop; other site 398511006400 ATP binding site [chemical binding]; other site 398511006401 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 398511006402 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 398511006403 active site 398511006404 metal binding site [ion binding]; metal-binding site 398511006405 DNA binding site [nucleotide binding] 398511006406 recombinase A; Provisional; Region: recA; PRK09354 398511006407 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 398511006408 hexamer interface [polypeptide binding]; other site 398511006409 Walker A motif; other site 398511006410 ATP binding site [chemical binding]; other site 398511006411 Walker B motif; other site 398511006412 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 398511006413 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 398511006414 ATP binding site [chemical binding]; other site 398511006415 Mg++ binding site [ion binding]; other site 398511006416 motif III; other site 398511006417 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 398511006418 nucleotide binding region [chemical binding]; other site 398511006419 ATP-binding site [chemical binding]; other site 398511006420 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 398511006421 RNA binding site [nucleotide binding]; other site 398511006422 competence damage-inducible protein A; Provisional; Region: PRK00549 398511006423 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 398511006424 putative MPT binding site; other site 398511006425 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 398511006426 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 398511006427 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 398511006428 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 398511006429 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 398511006430 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 398511006431 non-specific DNA binding site [nucleotide binding]; other site 398511006432 salt bridge; other site 398511006433 sequence-specific DNA binding site [nucleotide binding]; other site 398511006434 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 398511006435 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 398511006436 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 398511006437 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 398511006438 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 398511006439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398511006440 NAD(P) binding site [chemical binding]; other site 398511006441 active site 398511006442 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398511006443 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 398511006444 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398511006445 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398511006446 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398511006447 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398511006448 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398511006449 DNA-binding site [nucleotide binding]; DNA binding site 398511006450 UTRA domain; Region: UTRA; pfam07702 398511006451 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 398511006452 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 398511006453 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 398511006454 YlzJ-like protein; Region: YlzJ; pfam14035 398511006455 Clp protease; Region: CLP_protease; pfam00574 398511006456 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 398511006457 active site 398511006458 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 398511006459 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398511006460 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 398511006461 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 398511006462 dihydrodipicolinate synthase; Region: dapA; TIGR00674 398511006463 dimer interface [polypeptide binding]; other site 398511006464 active site 398511006465 catalytic residue [active] 398511006466 aspartate kinase I; Reviewed; Region: PRK08210 398511006467 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 398511006468 nucleotide binding site [chemical binding]; other site 398511006469 substrate binding site [chemical binding]; other site 398511006470 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 398511006471 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 398511006472 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 398511006473 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 398511006474 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 398511006475 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 398511006476 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 398511006477 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 398511006478 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 398511006479 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 398511006480 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 398511006481 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 398511006482 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 398511006483 NodB motif; other site 398511006484 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 398511006485 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 398511006486 RNase E interface [polypeptide binding]; other site 398511006487 trimer interface [polypeptide binding]; other site 398511006488 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 398511006489 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 398511006490 RNase E interface [polypeptide binding]; other site 398511006491 trimer interface [polypeptide binding]; other site 398511006492 active site 398511006493 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 398511006494 putative nucleic acid binding region [nucleotide binding]; other site 398511006495 G-X-X-G motif; other site 398511006496 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 398511006497 RNA binding site [nucleotide binding]; other site 398511006498 domain interface; other site 398511006499 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 398511006500 16S/18S rRNA binding site [nucleotide binding]; other site 398511006501 S13e-L30e interaction site [polypeptide binding]; other site 398511006502 25S rRNA binding site [nucleotide binding]; other site 398511006503 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 398511006504 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 398511006505 active site 398511006506 Riboflavin kinase; Region: Flavokinase; smart00904 398511006507 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 398511006508 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 398511006509 RNA binding site [nucleotide binding]; other site 398511006510 active site 398511006511 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 398511006512 Protein of unknown function (DUF503); Region: DUF503; cl00669 398511006513 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 398511006514 translation initiation factor IF-2; Region: IF-2; TIGR00487 398511006515 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 398511006516 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 398511006517 G1 box; other site 398511006518 putative GEF interaction site [polypeptide binding]; other site 398511006519 GTP/Mg2+ binding site [chemical binding]; other site 398511006520 Switch I region; other site 398511006521 G2 box; other site 398511006522 G3 box; other site 398511006523 Switch II region; other site 398511006524 G4 box; other site 398511006525 G5 box; other site 398511006526 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 398511006527 Translation-initiation factor 2; Region: IF-2; pfam11987 398511006528 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 398511006529 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 398511006530 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 398511006531 putative RNA binding cleft [nucleotide binding]; other site 398511006532 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 398511006533 NusA N-terminal domain; Region: NusA_N; pfam08529 398511006534 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 398511006535 RNA binding site [nucleotide binding]; other site 398511006536 homodimer interface [polypeptide binding]; other site 398511006537 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 398511006538 G-X-X-G motif; other site 398511006539 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 398511006540 G-X-X-G motif; other site 398511006541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 398511006542 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 398511006543 putative oligomer interface [polypeptide binding]; other site 398511006544 putative RNA binding site [nucleotide binding]; other site 398511006545 DNA polymerase III PolC; Validated; Region: polC; PRK00448 398511006546 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 398511006547 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 398511006548 generic binding surface II; other site 398511006549 generic binding surface I; other site 398511006550 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 398511006551 active site 398511006552 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 398511006553 active site 398511006554 catalytic site [active] 398511006555 substrate binding site [chemical binding]; other site 398511006556 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 398511006557 prolyl-tRNA synthetase; Provisional; Region: PRK09194 398511006558 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 398511006559 dimer interface [polypeptide binding]; other site 398511006560 motif 1; other site 398511006561 active site 398511006562 motif 2; other site 398511006563 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 398511006564 putative deacylase active site [active] 398511006565 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 398511006566 active site 398511006567 motif 3; other site 398511006568 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 398511006569 anticodon binding site; other site 398511006570 RIP metalloprotease RseP; Region: TIGR00054 398511006571 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 398511006572 active site 398511006573 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 398511006574 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 398511006575 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 398511006576 putative substrate binding region [chemical binding]; other site 398511006577 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 398511006578 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 398511006579 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 398511006580 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 398511006581 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 398511006582 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 398511006583 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 398511006584 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 398511006585 catalytic residue [active] 398511006586 putative FPP diphosphate binding site; other site 398511006587 putative FPP binding hydrophobic cleft; other site 398511006588 dimer interface [polypeptide binding]; other site 398511006589 putative IPP diphosphate binding site; other site 398511006590 ribosome recycling factor; Reviewed; Region: frr; PRK00083 398511006591 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 398511006592 hinge region; other site 398511006593 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 398511006594 putative nucleotide binding site [chemical binding]; other site 398511006595 uridine monophosphate binding site [chemical binding]; other site 398511006596 homohexameric interface [polypeptide binding]; other site 398511006597 elongation factor Ts; Provisional; Region: tsf; PRK09377 398511006598 UBA/TS-N domain; Region: UBA; pfam00627 398511006599 Elongation factor TS; Region: EF_TS; pfam00889 398511006600 Elongation factor TS; Region: EF_TS; pfam00889 398511006601 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 398511006602 rRNA interaction site [nucleotide binding]; other site 398511006603 S8 interaction site; other site 398511006604 putative laminin-1 binding site; other site 398511006605 Protein of unknown function (DUF342); Region: DUF342; pfam03961 398511006606 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398511006607 RNA polymerase sigma factor SigD; Validated; Region: PRK07670 398511006608 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511006609 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398511006610 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 398511006611 DNA binding residues [nucleotide binding] 398511006612 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 398511006613 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 398511006614 CheC-like family; Region: CheC; pfam04509 398511006615 CheC-like family; Region: CheC; pfam04509 398511006616 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 398511006617 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 398511006618 active site 398511006619 phosphorylation site [posttranslational modification] 398511006620 intermolecular recognition site; other site 398511006621 CheB methylesterase; Region: CheB_methylest; pfam01339 398511006622 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 398511006623 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 398511006624 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 398511006625 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 398511006626 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 398511006627 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 398511006628 FHIPEP family; Region: FHIPEP; pfam00771 398511006629 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 398511006630 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 398511006631 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 398511006632 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 398511006633 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 398511006634 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 398511006635 Response regulator receiver domain; Region: Response_reg; pfam00072 398511006636 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 398511006637 active site 398511006638 phosphorylation site [posttranslational modification] 398511006639 intermolecular recognition site; other site 398511006640 dimerization interface [polypeptide binding]; other site 398511006641 flagellar motor switch protein; Validated; Region: PRK08119 398511006642 CheC-like family; Region: CheC; pfam04509 398511006643 CheC-like family; Region: CheC; pfam04509 398511006644 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 398511006645 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 398511006646 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 398511006647 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 398511006648 Flagellar basal body-associated protein [Cell motility and secretion]; Region: FliL; COG1580 398511006649 Flagellar protein (FlbD); Region: FlbD; pfam06289 398511006650 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 398511006651 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398511006652 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398511006653 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 398511006654 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 398511006655 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 398511006656 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 398511006657 Uncharacterized conserved protein [Function unknown]; Region: COG3334 398511006658 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 398511006659 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 398511006660 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07721 398511006661 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 398511006662 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 398511006663 Walker A motif/ATP binding site; other site 398511006664 Walker B motif; other site 398511006665 flagellar assembly protein H; Validated; Region: fliH; PRK06669 398511006666 Flagellar assembly protein FliH; Region: FliH; pfam02108 398511006667 flagellar motor switch protein FliG; Region: fliG; TIGR00207 398511006668 MgtE intracellular N domain; Region: MgtE_N; cl15244 398511006669 FliG C-terminal domain; Region: FliG_C; pfam01706 398511006670 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 398511006671 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 398511006672 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 398511006673 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 398511006674 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 398511006675 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398511006676 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398511006677 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 398511006678 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 398511006679 transcriptional repressor CodY; Validated; Region: PRK04158 398511006680 CodY GAF-like domain; Region: CodY; pfam06018 398511006681 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 398511006682 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 398511006683 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 398511006684 Walker A motif; other site 398511006685 ATP binding site [chemical binding]; other site 398511006686 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 398511006687 Walker B motif; other site 398511006688 arginine finger; other site 398511006689 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398511006690 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 398511006691 active site 398511006692 HslU subunit interaction site [polypeptide binding]; other site 398511006693 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 398511006694 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 398511006695 active site 398511006696 Int/Topo IB signature motif; other site 398511006697 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 398511006698 Glucose inhibited division protein A; Region: GIDA; pfam01134 398511006699 DNA topoisomerase I; Validated; Region: PRK05582 398511006700 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 398511006701 active site 398511006702 interdomain interaction site; other site 398511006703 putative metal-binding site [ion binding]; other site 398511006704 nucleotide binding site [chemical binding]; other site 398511006705 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 398511006706 domain I; other site 398511006707 DNA binding groove [nucleotide binding] 398511006708 phosphate binding site [ion binding]; other site 398511006709 domain II; other site 398511006710 domain III; other site 398511006711 nucleotide binding site [chemical binding]; other site 398511006712 catalytic site [active] 398511006713 domain IV; other site 398511006714 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 398511006715 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 398511006716 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 398511006717 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 398511006718 DNA protecting protein DprA; Region: dprA; TIGR00732 398511006719 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 398511006720 CoA binding domain; Region: CoA_binding; smart00881 398511006721 CoA-ligase; Region: Ligase_CoA; pfam00549 398511006722 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 398511006723 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 398511006724 CoA-ligase; Region: Ligase_CoA; pfam00549 398511006725 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 398511006726 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 398511006727 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 398511006728 RNA/DNA hybrid binding site [nucleotide binding]; other site 398511006729 active site 398511006730 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 398511006731 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 398511006732 GTP/Mg2+ binding site [chemical binding]; other site 398511006733 G4 box; other site 398511006734 G5 box; other site 398511006735 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 398511006736 G1 box; other site 398511006737 G1 box; other site 398511006738 GTP/Mg2+ binding site [chemical binding]; other site 398511006739 Switch I region; other site 398511006740 G2 box; other site 398511006741 G2 box; other site 398511006742 G3 box; other site 398511006743 G3 box; other site 398511006744 Switch II region; other site 398511006745 Switch II region; other site 398511006746 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 398511006747 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 398511006748 Catalytic site [active] 398511006749 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 398511006750 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 398511006751 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 398511006752 RimM N-terminal domain; Region: RimM; pfam01782 398511006753 PRC-barrel domain; Region: PRC; pfam05239 398511006754 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 398511006755 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 398511006756 KH domain; Region: KH_4; pfam13083 398511006757 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 398511006758 signal recognition particle protein; Provisional; Region: PRK10867 398511006759 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 398511006760 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 398511006761 P loop; other site 398511006762 GTP binding site [chemical binding]; other site 398511006763 Signal peptide binding domain; Region: SRP_SPB; pfam02978 398511006764 putative DNA-binding protein; Validated; Region: PRK00118 398511006765 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 398511006766 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 398511006767 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 398511006768 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 398511006769 P loop; other site 398511006770 GTP binding site [chemical binding]; other site 398511006771 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 398511006772 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 398511006773 Walker A/P-loop; other site 398511006774 ATP binding site [chemical binding]; other site 398511006775 Q-loop/lid; other site 398511006776 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 398511006777 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 398511006778 ABC transporter signature motif; other site 398511006779 Walker B; other site 398511006780 D-loop; other site 398511006781 H-loop/switch region; other site 398511006782 Protein of unknown function (DUF1128); Region: DUF1128; pfam06569 398511006783 ribonuclease III; Reviewed; Region: rnc; PRK00102 398511006784 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 398511006785 dimerization interface [polypeptide binding]; other site 398511006786 active site 398511006787 metal binding site [ion binding]; metal-binding site 398511006788 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 398511006789 dsRNA binding site [nucleotide binding]; other site 398511006790 acyl carrier protein; Provisional; Region: acpP; PRK00982 398511006791 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398511006792 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398511006793 NAD(P) binding site [chemical binding]; other site 398511006794 homotetramer interface [polypeptide binding]; other site 398511006795 homodimer interface [polypeptide binding]; other site 398511006796 active site 398511006797 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 398511006798 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398511006799 putative phosphate acyltransferase; Provisional; Region: PRK05331 398511006800 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 398511006801 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 398511006802 active site 2 [active] 398511006803 active site 1 [active] 398511006804 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 398511006805 Y-family of DNA polymerases; Region: PolY; cl12025 398511006806 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 398511006807 generic binding surface II; other site 398511006808 ssDNA binding site; other site 398511006809 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 398511006810 ATP binding site [chemical binding]; other site 398511006811 putative Mg++ binding site [ion binding]; other site 398511006812 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 398511006813 nucleotide binding region [chemical binding]; other site 398511006814 ATP-binding site [chemical binding]; other site 398511006815 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 398511006816 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 398511006817 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 398511006818 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 398511006819 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 398511006820 putative L-serine binding site [chemical binding]; other site 398511006821 EDD domain protein, DegV family; Region: DegV; TIGR00762 398511006822 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 398511006823 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 398511006824 DAK2 domain; Region: Dak2; pfam02734 398511006825 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 398511006826 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 398511006827 Stage V sporulation protein family; Region: SpoV; cl15455 398511006828 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 398511006829 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 398511006830 substrate binding site [chemical binding]; other site 398511006831 hexamer interface [polypeptide binding]; other site 398511006832 metal binding site [ion binding]; metal-binding site 398511006833 GTPase RsgA; Reviewed; Region: PRK00098 398511006834 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 398511006835 RNA binding site [nucleotide binding]; other site 398511006836 homodimer interface [polypeptide binding]; other site 398511006837 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 398511006838 GTPase/Zn-binding domain interface [polypeptide binding]; other site 398511006839 GTP/Mg2+ binding site [chemical binding]; other site 398511006840 G4 box; other site 398511006841 G5 box; other site 398511006842 G1 box; other site 398511006843 Switch I region; other site 398511006844 G2 box; other site 398511006845 G3 box; other site 398511006846 Switch II region; other site 398511006847 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 398511006848 Catalytic domain of Protein Kinases; Region: PKc; cd00180 398511006849 active site 398511006850 ATP binding site [chemical binding]; other site 398511006851 substrate binding site [chemical binding]; other site 398511006852 activation loop (A-loop); other site 398511006853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 398511006854 PASTA domain; Region: PASTA; pfam03793 398511006855 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 398511006856 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 398511006857 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 398511006858 Protein phosphatase 2C; Region: PP2C; pfam00481 398511006859 active site 398511006860 16S rRNA methyltransferase B; Provisional; Region: PRK14902 398511006861 NusB family; Region: NusB; pfam01029 398511006862 putative RNA binding site [nucleotide binding]; other site 398511006863 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 398511006864 S-adenosylmethionine binding site [chemical binding]; other site 398511006865 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 398511006866 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 398511006867 putative active site [active] 398511006868 substrate binding site [chemical binding]; other site 398511006869 putative cosubstrate binding site; other site 398511006870 catalytic site [active] 398511006871 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 398511006872 substrate binding site [chemical binding]; other site 398511006873 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 398511006874 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 398511006875 ATP binding site [chemical binding]; other site 398511006876 putative Mg++ binding site [ion binding]; other site 398511006877 helicase superfamily c-terminal domain; Region: HELICc; smart00490 398511006878 ATP-binding site [chemical binding]; other site 398511006879 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 398511006880 Flavoprotein; Region: Flavoprotein; pfam02441 398511006881 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 398511006882 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 398511006883 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 398511006884 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 398511006885 catalytic site [active] 398511006886 G-X2-G-X-G-K; other site 398511006887 hypothetical protein; Provisional; Region: PRK04323 398511006888 hypothetical protein; Provisional; Region: PRK11820 398511006889 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 398511006890 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 398511006891 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 398511006892 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 398511006893 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398511006894 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 398511006895 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 398511006896 motif II; other site 398511006897 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 398511006898 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 398511006899 Domain of unknown function (DUF814); Region: DUF814; pfam05670 398511006900 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 398511006901 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 398511006902 FeS/SAM binding site; other site 398511006903 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 398511006904 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 398511006905 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 398511006906 putative substrate translocation pore; other site 398511006907 Uncharacterized conserved protein [Function unknown]; Region: COG5609 398511006908 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 398511006909 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 398511006910 S-adenosylmethionine binding site [chemical binding]; other site 398511006911 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398511006912 active site 398511006913 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 398511006914 active site 398511006915 dimer interface [polypeptide binding]; other site 398511006916 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 398511006917 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 398511006918 heterodimer interface [polypeptide binding]; other site 398511006919 active site 398511006920 FMN binding site [chemical binding]; other site 398511006921 homodimer interface [polypeptide binding]; other site 398511006922 substrate binding site [chemical binding]; other site 398511006923 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 398511006924 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 398511006925 FAD binding pocket [chemical binding]; other site 398511006926 FAD binding motif [chemical binding]; other site 398511006927 phosphate binding motif [ion binding]; other site 398511006928 beta-alpha-beta structure motif; other site 398511006929 NAD binding pocket [chemical binding]; other site 398511006930 Iron coordination center [ion binding]; other site 398511006931 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 398511006932 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398511006933 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 398511006934 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 398511006935 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398511006936 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398511006937 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 398511006938 IMP binding site; other site 398511006939 dimer interface [polypeptide binding]; other site 398511006940 interdomain contacts; other site 398511006941 partial ornithine binding site; other site 398511006942 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 398511006943 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 398511006944 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 398511006945 catalytic site [active] 398511006946 subunit interface [polypeptide binding]; other site 398511006947 dihydroorotase; Validated; Region: pyrC; PRK09357 398511006948 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 398511006949 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 398511006950 active site 398511006951 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 398511006952 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398511006953 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 398511006954 uracil transporter; Provisional; Region: PRK10720 398511006955 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 398511006956 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398511006957 active site 398511006958 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 398511006959 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 398511006960 RNA binding surface [nucleotide binding]; other site 398511006961 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398511006962 active site 398511006963 lipoprotein signal peptidase; Provisional; Region: PRK14787 398511006964 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 398511006965 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 398511006966 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 398511006967 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398511006968 active site 398511006969 HIGH motif; other site 398511006970 nucleotide binding site [chemical binding]; other site 398511006971 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398511006972 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 398511006973 active site 398511006974 KMSKS motif; other site 398511006975 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 398511006976 tRNA binding surface [nucleotide binding]; other site 398511006977 anticodon binding site; other site 398511006978 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 398511006979 DivIVA protein; Region: DivIVA; pfam05103 398511006980 DivIVA domain; Region: DivI1A_domain; TIGR03544 398511006981 V-type ATP synthase subunit E; Provisional; Region: PRK01558 398511006982 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 398511006983 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 398511006984 RNA binding surface [nucleotide binding]; other site 398511006985 YGGT family; Region: YGGT; pfam02325 398511006986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 398511006987 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 398511006988 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398511006989 catalytic residue [active] 398511006990 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 398511006991 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 398511006992 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 398511006993 sporulation sigma factor SigG; Reviewed; Region: PRK08215 398511006994 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511006995 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398511006996 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 398511006997 DNA binding residues [nucleotide binding] 398511006998 sporulation sigma factor SigE; Reviewed; Region: PRK08301 398511006999 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511007000 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 398511007001 DNA binding residues [nucleotide binding] 398511007002 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 398511007003 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 398511007004 cell division protein FtsZ; Validated; Region: PRK09330 398511007005 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 398511007006 nucleotide binding site [chemical binding]; other site 398511007007 SulA interaction site; other site 398511007008 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 398511007009 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 398511007010 nucleotide binding site [chemical binding]; other site 398511007011 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 398511007012 Cell division protein FtsA; Region: FtsA; pfam14450 398511007013 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 398511007014 Uncharacterized conserved protein (small basic protein) [Function unknown]; Region: Sbp; COG3856 398511007015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 398511007016 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 398511007017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 398511007018 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 398511007019 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 398511007020 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 398511007021 Cell division protein FtsQ; Region: FtsQ; pfam03799 398511007022 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 398511007023 FAD binding domain; Region: FAD_binding_4; pfam01565 398511007024 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 398511007025 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 398511007026 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 398511007027 active site 398511007028 homodimer interface [polypeptide binding]; other site 398511007029 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 398511007030 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 398511007031 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398511007032 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398511007033 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 398511007034 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 398511007035 Mg++ binding site [ion binding]; other site 398511007036 putative catalytic motif [active] 398511007037 putative substrate binding site [chemical binding]; other site 398511007038 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 398511007039 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398511007040 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398511007041 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398511007042 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 398511007043 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398511007044 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398511007045 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398511007046 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 398511007047 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398511007048 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398511007049 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cd06573 398511007050 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 398511007051 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398511007052 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398511007053 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 398511007054 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 398511007055 Cell division protein FtsL; Region: FtsL; cl11433 398511007056 MraW methylase family; Region: Methyltransf_5; pfam01795 398511007057 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 398511007058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 398511007059 MraZ protein; Region: MraZ; pfam02381 398511007060 MraZ protein; Region: MraZ; pfam02381 398511007061 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 398511007062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 398511007063 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 398511007064 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 398511007065 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398511007066 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398511007067 hypothetical protein; Provisional; Region: PRK13688 398511007068 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511007069 Coenzyme A binding pocket [chemical binding]; other site 398511007070 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 398511007071 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 398511007072 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398511007073 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398511007074 substrate binding site [chemical binding]; other site 398511007075 oxyanion hole (OAH) forming residues; other site 398511007076 trimer interface [polypeptide binding]; other site 398511007077 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 398511007078 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 398511007079 hypothetical protein; Provisional; Region: PRK13670 398511007080 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 398511007081 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 398511007082 PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ...; Region: PDZ_LON_protease; cd00986 398511007083 protein binding site [polypeptide binding]; other site 398511007084 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 398511007085 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 398511007086 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 398511007087 active site 398511007088 nucleophile elbow; other site 398511007089 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 398511007090 Nucleoside recognition; Region: Gate; pfam07670 398511007091 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 398511007092 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 398511007093 active site 398511007094 (T/H)XGH motif; other site 398511007095 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 398511007096 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 398511007097 S-adenosylmethionine binding site [chemical binding]; other site 398511007098 drug efflux system protein MdtG; Provisional; Region: PRK09874 398511007099 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 398511007100 putative substrate translocation pore; other site 398511007101 hypothetical protein; Provisional; Region: PRK02886 398511007102 Regulatory protein involved in competence development and sporulation [Replication, recombination and repair; Signal transduction mechanisms]; Region: COG3679 398511007103 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 398511007104 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 398511007105 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398511007106 YlbE-like protein; Region: YlbE; pfam14003 398511007107 Putative coat protein; Region: YlbD_coat; pfam14071 398511007108 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 398511007109 CoenzymeA binding site [chemical binding]; other site 398511007110 subunit interaction site [polypeptide binding]; other site 398511007111 PHB binding site; other site 398511007112 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 398511007113 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 398511007114 YugN-like family; Region: YugN; pfam08868 398511007115 Transposase; Region: HTH_Tnp_1; cl17663 398511007116 Integrase core domain; Region: rve; pfam00665 398511007117 Integrase core domain; Region: rve_3; pfam13683 398511007118 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 398511007119 Domain of unknown function DUF20; Region: UPF0118; pfam01594 398511007120 Predicted membrane protein [Function unknown]; Region: COG2322 398511007121 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 398511007122 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 398511007123 Subunit I/III interface [polypeptide binding]; other site 398511007124 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 398511007125 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 398511007126 D-pathway; other site 398511007127 Putative ubiquinol binding site [chemical binding]; other site 398511007128 Low-spin heme (heme b) binding site [chemical binding]; other site 398511007129 Putative water exit pathway; other site 398511007130 Binuclear center (heme o3/CuB) [ion binding]; other site 398511007131 K-pathway; other site 398511007132 Putative proton exit pathway; other site 398511007133 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 398511007134 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 398511007135 Cytochrome c; Region: Cytochrom_C; pfam00034 398511007136 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 398511007137 UbiA prenyltransferase family; Region: UbiA; pfam01040 398511007138 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 398511007139 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 398511007140 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 398511007141 DNA photolyase; Region: DNA_photolyase; pfam00875 398511007142 pyruvate carboxylase; Reviewed; Region: PRK12999 398511007143 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398511007144 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 398511007145 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398511007146 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 398511007147 active site 398511007148 catalytic residues [active] 398511007149 metal binding site [ion binding]; metal-binding site 398511007150 homodimer binding site [polypeptide binding]; other site 398511007151 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 398511007152 carboxyltransferase (CT) interaction site; other site 398511007153 biotinylation site [posttranslational modification]; other site 398511007154 hypothetical protein; Provisional; Region: PRK13666 398511007155 glutaminase; Provisional; Region: PRK00971 398511007156 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 398511007157 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 398511007158 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 398511007159 putative active site [active] 398511007160 PhoH-like protein; Region: PhoH; pfam02562 398511007161 hypothetical protein; Provisional; Region: PRK06733 398511007162 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; pfam09963 398511007163 YlaH-like protein; Region: YlaH; pfam14036 398511007164 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 398511007165 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 398511007166 G1 box; other site 398511007167 putative GEF interaction site [polypeptide binding]; other site 398511007168 GTP/Mg2+ binding site [chemical binding]; other site 398511007169 Switch I region; other site 398511007170 G2 box; other site 398511007171 G3 box; other site 398511007172 Switch II region; other site 398511007173 G4 box; other site 398511007174 G5 box; other site 398511007175 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 398511007176 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 398511007177 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 398511007178 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 398511007179 active site 398511007180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 398511007181 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 398511007182 hypothetical protein; Provisional; Region: PRK04387 398511007183 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 398511007184 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 398511007185 FMN binding site [chemical binding]; other site 398511007186 substrate binding site [chemical binding]; other site 398511007187 putative catalytic residue [active] 398511007188 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 398511007189 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 398511007190 homodimer interface [polypeptide binding]; other site 398511007191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511007192 catalytic residue [active] 398511007193 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 398511007194 Domain of unknown function (DUF4182); Region: DUF4182; pfam13790 398511007195 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398511007196 Peptidase family M23; Region: Peptidase_M23; pfam01551 398511007197 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 398511007198 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 398511007199 NodB motif; other site 398511007200 active site 398511007201 catalytic site [active] 398511007202 metal binding site [ion binding]; metal-binding site 398511007203 Predicted membrane protein [Function unknown]; Region: COG4129 398511007204 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 398511007205 BCCT family transporter; Region: BCCT; pfam02028 398511007206 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 398511007207 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398511007208 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511007209 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398511007210 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 398511007211 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 398511007212 E3 interaction surface; other site 398511007213 lipoyl attachment site [posttranslational modification]; other site 398511007214 e3 binding domain; Region: E3_binding; pfam02817 398511007215 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 398511007216 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 398511007217 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 398511007218 alpha subunit interface [polypeptide binding]; other site 398511007219 TPP binding site [chemical binding]; other site 398511007220 heterodimer interface [polypeptide binding]; other site 398511007221 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398511007222 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 398511007223 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 398511007224 TPP-binding site [chemical binding]; other site 398511007225 heterodimer interface [polypeptide binding]; other site 398511007226 tetramer interface [polypeptide binding]; other site 398511007227 phosphorylation loop region [posttranslational modification] 398511007228 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 398511007229 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 398511007230 active site 398511007231 catalytic residues [active] 398511007232 metal binding site [ion binding]; metal-binding site 398511007233 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 398511007234 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 398511007235 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 398511007236 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 398511007237 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 398511007238 TrkA-N domain; Region: TrkA_N; pfam02254 398511007239 TrkA-C domain; Region: TrkA_C; pfam02080 398511007240 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398511007241 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 398511007242 dimer interface [polypeptide binding]; other site 398511007243 decamer (pentamer of dimers) interface [polypeptide binding]; other site 398511007244 catalytic triad [active] 398511007245 peroxidatic and resolving cysteines [active] 398511007246 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398511007247 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398511007248 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 398511007249 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 398511007250 hypothetical protein; Provisional; Region: PRK03094 398511007251 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398511007252 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 398511007253 metal binding site [ion binding]; metal-binding site 398511007254 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 398511007255 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 398511007256 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 398511007257 trimer interface [polypeptide binding]; other site 398511007258 active site 398511007259 substrate binding site [chemical binding]; other site 398511007260 CoA binding site [chemical binding]; other site 398511007261 Predicted permeases [General function prediction only]; Region: COG0679 398511007262 DctM-like transporters; Region: DctM; pfam06808 398511007263 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 398511007264 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 398511007265 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398511007266 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 398511007267 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 398511007268 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398511007269 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398511007270 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398511007271 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 398511007272 putative active site [active] 398511007273 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 398511007274 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 398511007275 N- and C-terminal domain interface [polypeptide binding]; other site 398511007276 active site 398511007277 catalytic site [active] 398511007278 metal binding site [ion binding]; metal-binding site 398511007279 carbohydrate binding site [chemical binding]; other site 398511007280 ATP binding site [chemical binding]; other site 398511007281 isocitrate lyase; Provisional; Region: PRK15063 398511007282 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 398511007283 tetramer interface [polypeptide binding]; other site 398511007284 active site 398511007285 Mg2+/Mn2+ binding site [ion binding]; other site 398511007286 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 398511007287 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511007288 putative substrate translocation pore; other site 398511007289 BCCT family transporter; Region: BCCT; pfam02028 398511007290 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398511007291 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398511007292 YtxH-like protein; Region: YtxH; pfam12732 398511007293 biotin synthase; Validated; Region: PRK06256 398511007294 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 398511007295 FeS/SAM binding site; other site 398511007296 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 398511007297 Ion transport protein; Region: Ion_trans; pfam00520 398511007298 Ion channel; Region: Ion_trans_2; pfam07885 398511007299 Glutathionylspermidine synthase preATP-grasp; Region: GSP_synth; cl00503 398511007300 Predicted membrane protein [Function unknown]; Region: COG3766 398511007301 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 398511007302 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 398511007303 Glutathionylspermidine synthase preATP-grasp; Region: GSP_synth; cl00503 398511007304 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511007305 Coenzyme A binding pocket [chemical binding]; other site 398511007306 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 398511007307 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 398511007308 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 398511007309 catalytic triad [active] 398511007310 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511007311 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 398511007312 putative substrate translocation pore; other site 398511007313 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 398511007314 active site residue [active] 398511007315 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398511007316 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 398511007317 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 398511007318 catalytic residues [active] 398511007319 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 398511007320 active site residue [active] 398511007321 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 398511007322 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 398511007323 nickel binding site [ion binding]; other site 398511007324 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 398511007325 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 398511007326 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 398511007327 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 398511007328 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 398511007329 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 398511007330 dimerization interface [polypeptide binding]; other site 398511007331 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 398511007332 ATP binding site [chemical binding]; other site 398511007333 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 398511007334 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 398511007335 HupF/HypC family; Region: HupF_HypC; pfam01455 398511007336 Acylphosphatase; Region: Acylphosphatase; pfam00708 398511007337 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 398511007338 HypF finger; Region: zf-HYPF; pfam07503 398511007339 HypF finger; Region: zf-HYPF; pfam07503 398511007340 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 398511007341 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 398511007342 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 398511007343 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 398511007344 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 398511007345 active site 398511007346 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 398511007347 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 398511007348 molybdopterin cofactor binding site; other site 398511007349 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 398511007350 molybdopterin cofactor binding site; other site 398511007351 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 398511007352 PAS fold; Region: PAS_4; pfam08448 398511007353 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 398511007354 putative active site [active] 398511007355 heme pocket [chemical binding]; other site 398511007356 PAS domain S-box; Region: sensory_box; TIGR00229 398511007357 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 398511007358 putative active site [active] 398511007359 heme pocket [chemical binding]; other site 398511007360 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398511007361 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 398511007362 dimer interface [polypeptide binding]; other site 398511007363 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 398511007364 ATP binding site [chemical binding]; other site 398511007365 Mg2+ binding site [ion binding]; other site 398511007366 G-X-G motif; other site 398511007367 DNA polymerase IV; Reviewed; Region: PRK03103 398511007368 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 398511007369 active site 398511007370 DNA binding site [nucleotide binding] 398511007371 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 398511007372 HTH-like domain; Region: HTH_21; pfam13276 398511007373 Integrase core domain; Region: rve; pfam00665 398511007374 Integrase core domain; Region: rve_3; pfam13683 398511007375 Transposase; Region: HTH_Tnp_1; cl17663 398511007376 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 398511007377 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 398511007378 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 398511007379 intersubunit interface [polypeptide binding]; other site 398511007380 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 398511007381 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 398511007382 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 398511007383 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 398511007384 E3 interaction surface; other site 398511007385 lipoyl attachment site [posttranslational modification]; other site 398511007386 e3 binding domain; Region: E3_binding; pfam02817 398511007387 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 398511007388 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 398511007389 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 398511007390 alpha subunit interface [polypeptide binding]; other site 398511007391 TPP binding site [chemical binding]; other site 398511007392 heterodimer interface [polypeptide binding]; other site 398511007393 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398511007394 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 398511007395 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 398511007396 tetramer interface [polypeptide binding]; other site 398511007397 TPP-binding site [chemical binding]; other site 398511007398 heterodimer interface [polypeptide binding]; other site 398511007399 phosphorylation loop region [posttranslational modification] 398511007400 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 398511007401 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 398511007402 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511007403 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398511007404 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 398511007405 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 398511007406 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 398511007407 NAD binding site [chemical binding]; other site 398511007408 Phe binding site; other site 398511007409 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 398511007410 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 398511007411 putative active site [active] 398511007412 heme pocket [chemical binding]; other site 398511007413 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 398511007414 putative active site [active] 398511007415 heme pocket [chemical binding]; other site 398511007416 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 398511007417 Walker A motif; other site 398511007418 ATP binding site [chemical binding]; other site 398511007419 Walker B motif; other site 398511007420 arginine finger; other site 398511007421 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398511007422 Protein of unknown function (DUF2627); Region: DUF2627; pfam11118 398511007423 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 398511007424 Ligand binding site; other site 398511007425 Putative Catalytic site; other site 398511007426 DXD motif; other site 398511007427 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 398511007428 Thiamine pyrophosphokinase; Region: TPK; cl08415 398511007429 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 398511007430 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 398511007431 active site 398511007432 phosphorylation site [posttranslational modification] 398511007433 intermolecular recognition site; other site 398511007434 dimerization interface [polypeptide binding]; other site 398511007435 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 398511007436 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398511007437 HTH-like domain; Region: HTH_21; pfam13276 398511007438 Integrase core domain; Region: rve; pfam00665 398511007439 Integrase core domain; Region: rve_2; pfam13333 398511007440 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 398511007441 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 398511007442 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 398511007443 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 398511007444 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 398511007445 Walker A/P-loop; other site 398511007446 ATP binding site [chemical binding]; other site 398511007447 Q-loop/lid; other site 398511007448 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 398511007449 ABC transporter signature motif; other site 398511007450 Walker B; other site 398511007451 D-loop; other site 398511007452 H-loop/switch region; other site 398511007453 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 398511007454 arginine repressor; Provisional; Region: PRK04280 398511007455 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 398511007456 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 398511007457 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 398511007458 RNA binding surface [nucleotide binding]; other site 398511007459 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 398511007460 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 398511007461 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 398511007462 TPP-binding site; other site 398511007463 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 398511007464 PYR/PP interface [polypeptide binding]; other site 398511007465 dimer interface [polypeptide binding]; other site 398511007466 TPP binding site [chemical binding]; other site 398511007467 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398511007468 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 398511007469 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 398511007470 substrate binding pocket [chemical binding]; other site 398511007471 chain length determination region; other site 398511007472 substrate-Mg2+ binding site; other site 398511007473 catalytic residues [active] 398511007474 aspartate-rich region 1; other site 398511007475 active site lid residues [active] 398511007476 aspartate-rich region 2; other site 398511007477 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 398511007478 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 398511007479 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 398511007480 generic binding surface II; other site 398511007481 generic binding surface I; other site 398511007482 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 398511007483 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 398511007484 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 398511007485 homodimer interface [polypeptide binding]; other site 398511007486 NADP binding site [chemical binding]; other site 398511007487 substrate binding site [chemical binding]; other site 398511007488 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 398511007489 Asp23 family; Region: Asp23; pfam03780 398511007490 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 398511007491 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398511007492 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398511007493 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398511007494 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 398511007495 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 398511007496 carboxyltransferase (CT) interaction site; other site 398511007497 biotinylation site [posttranslational modification]; other site 398511007498 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 398511007499 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 398511007500 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 398511007501 stage III sporulation protein AE; Region: spore_III_AE; TIGR02829 398511007502 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 398511007503 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 398511007504 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 398511007505 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 398511007506 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 398511007507 Walker A motif; other site 398511007508 ATP binding site [chemical binding]; other site 398511007509 Walker B motif; other site 398511007510 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 398511007511 elongation factor P; Validated; Region: PRK00529 398511007512 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 398511007513 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 398511007514 RNA binding site [nucleotide binding]; other site 398511007515 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 398511007516 RNA binding site [nucleotide binding]; other site 398511007517 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 398511007518 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 398511007519 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 398511007520 active site 398511007521 Dehydroquinase class II; Region: DHquinase_II; pfam01220 398511007522 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 398511007523 trimer interface [polypeptide binding]; other site 398511007524 active site 398511007525 dimer interface [polypeptide binding]; other site 398511007526 Conserved membrane protein YqhR; Region: YqhR; pfam11085 398511007527 K+-dependent Na+/Ca+ exchanger; Region: 2A1904; TIGR00927 398511007528 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 398511007529 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 398511007530 active site 398511007531 nucleophile elbow; other site 398511007532 manganese transport transcriptional regulator; Provisional; Region: PRK03902 398511007533 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 398511007534 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 398511007535 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 398511007536 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 398511007537 FeS/SAM binding site; other site 398511007538 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08115 398511007539 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 398511007540 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 398511007541 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 398511007542 active site 398511007543 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 398511007544 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 398511007545 homodimer interface [polypeptide binding]; other site 398511007546 substrate-cofactor binding pocket; other site 398511007547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511007548 catalytic residue [active] 398511007549 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 398511007550 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 398511007551 active site residue [active] 398511007552 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 398511007553 tetramer interface [polypeptide binding]; other site 398511007554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511007555 catalytic residue [active] 398511007556 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 398511007557 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 398511007558 tetramer interface [polypeptide binding]; other site 398511007559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511007560 catalytic residue [active] 398511007561 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 398511007562 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 398511007563 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398511007564 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 398511007565 ATP binding site [chemical binding]; other site 398511007566 putative Mg++ binding site [ion binding]; other site 398511007567 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 398511007568 nucleotide binding region [chemical binding]; other site 398511007569 ATP-binding site [chemical binding]; other site 398511007570 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 398511007571 Protein of unknown function (DUF2759); Region: DUF2759; pfam10958 398511007572 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398511007573 Protein of unknown function (DUF2626); Region: DUF2626; pfam11117 398511007574 YqzE-like protein; Region: YqzE; pfam14038 398511007575 shikimate kinase; Reviewed; Region: aroK; PRK00131 398511007576 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 398511007577 ADP binding site [chemical binding]; other site 398511007578 magnesium binding site [ion binding]; other site 398511007579 putative shikimate binding site; other site 398511007580 ComG operon protein 7; Region: ComGG; pfam14173 398511007581 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 398511007582 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 398511007583 Haemolytic domain; Region: Haemolytic; pfam01809 398511007584 potential protein location (hypothetical protein BpOF4_01740 [Bacillus pseudofirmus OF4]) that overlaps RNA (tRNA-H); potential protein location (hypothetical protein BpOF4_01740 [Bacillus pseudofirmus OF4]) that overlaps RNA (tRNA-Q); potential protein location (hypothetical protein BpOF4_01740 [Bacillus pseudofirmus OF4]) that overlaps RNA (tRNA-Y) 398511007585 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398511007586 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398511007587 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 398511007588 Walker A motif; other site 398511007589 ATP binding site [chemical binding]; other site 398511007590 Walker B motif; other site 398511007591 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 398511007592 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 398511007593 HNH endonuclease; Region: HNH; pfam01844 398511007594 active site 398511007595 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 398511007596 Part of AAA domain; Region: AAA_19; pfam13245 398511007597 Family description; Region: UvrD_C_2; pfam13538 398511007598 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 398511007599 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398511007600 Zn2+ binding site [ion binding]; other site 398511007601 Mg2+ binding site [ion binding]; other site 398511007602 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 398511007603 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 398511007604 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 398511007605 NAD binding site [chemical binding]; other site 398511007606 homotetramer interface [polypeptide binding]; other site 398511007607 homodimer interface [polypeptide binding]; other site 398511007608 substrate binding site [chemical binding]; other site 398511007609 active site 398511007610 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 398511007611 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 398511007612 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 398511007613 active site 398511007614 putative catalytic site [active] 398511007615 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 398511007616 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 398511007617 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 398511007618 Ligand Binding Site [chemical binding]; other site 398511007619 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 398511007620 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 398511007621 active site 398511007622 metal binding site [ion binding]; metal-binding site 398511007623 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398511007624 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 398511007625 RNA binding surface [nucleotide binding]; other site 398511007626 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398511007627 active site 398511007628 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 398511007629 ATP-NAD kinase; Region: NAD_kinase; pfam01513 398511007630 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 398511007631 synthetase active site [active] 398511007632 NTP binding site [chemical binding]; other site 398511007633 metal binding site [ion binding]; metal-binding site 398511007634 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 398511007635 putative active site [active] 398511007636 putative metal binding residues [ion binding]; other site 398511007637 signature motif; other site 398511007638 putative triphosphate binding site [ion binding]; other site 398511007639 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398511007640 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 398511007641 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398511007642 catalytic residue [active] 398511007643 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 398511007644 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 398511007645 putative [4Fe-4S] binding site [ion binding]; other site 398511007646 putative molybdopterin cofactor binding site [chemical binding]; other site 398511007647 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 398511007648 molybdopterin cofactor binding site; other site 398511007649 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 398511007650 apolar tunnel; other site 398511007651 heme binding site [chemical binding]; other site 398511007652 dimerization interface [polypeptide binding]; other site 398511007653 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 398511007654 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 398511007655 catalytic residues [active] 398511007656 oligoendopeptidase F; Region: pepF; TIGR00181 398511007657 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 398511007658 active site 398511007659 Zn binding site [ion binding]; other site 398511007660 Competence protein CoiA-like family; Region: CoiA; cl11541 398511007661 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 398511007662 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 398511007663 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 398511007664 putative active site [active] 398511007665 catalytic site [active] 398511007666 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 398511007667 putative active site [active] 398511007668 catalytic site [active] 398511007669 adaptor protein; Provisional; Region: PRK02315 398511007670 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 398511007671 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 398511007672 ArsC family; Region: ArsC; pfam03960 398511007673 putative catalytic residues [active] 398511007674 thiol/disulfide switch; other site 398511007675 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511007676 Coenzyme A binding pocket [chemical binding]; other site 398511007677 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 398511007678 Helix-turn-helix domain; Region: HTH_17; cl17695 398511007679 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 398511007680 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 398511007681 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 398511007682 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398511007683 Zn2+ binding site [ion binding]; other site 398511007684 Mg2+ binding site [ion binding]; other site 398511007685 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 398511007686 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 398511007687 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 398511007688 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 398511007689 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398511007690 catalytic residues [active] 398511007691 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 398511007692 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 398511007693 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398511007694 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398511007695 NAD(P) binding site [chemical binding]; other site 398511007696 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 398511007697 intersubunit interface [polypeptide binding]; other site 398511007698 active site 398511007699 Zn2+ binding site [ion binding]; other site 398511007700 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 398511007701 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 398511007702 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 398511007703 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 398511007704 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 398511007705 active site 398511007706 HIGH motif; other site 398511007707 dimer interface [polypeptide binding]; other site 398511007708 KMSKS motif; other site 398511007709 Protein of unknown function (DUF3603); Region: DUF3603; pfam12227 398511007710 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; pfam10026 398511007711 DNA topoisomerase III; Provisional; Region: PRK07726 398511007712 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 398511007713 active site 398511007714 putative interdomain interaction site [polypeptide binding]; other site 398511007715 putative metal-binding site [ion binding]; other site 398511007716 putative nucleotide binding site [chemical binding]; other site 398511007717 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 398511007718 domain I; other site 398511007719 DNA binding groove [nucleotide binding] 398511007720 phosphate binding site [ion binding]; other site 398511007721 domain II; other site 398511007722 domain III; other site 398511007723 nucleotide binding site [chemical binding]; other site 398511007724 catalytic site [active] 398511007725 domain IV; other site 398511007726 Predicted esterase [General function prediction only]; Region: COG0400 398511007727 putative hydrolase; Provisional; Region: PRK11460 398511007728 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 398511007729 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398511007730 Zn binding site [ion binding]; other site 398511007731 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 398511007732 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398511007733 Zn binding site [ion binding]; other site 398511007734 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398511007735 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 398511007736 putative Zn2+ binding site [ion binding]; other site 398511007737 putative DNA binding site [nucleotide binding]; other site 398511007738 PRC-barrel domain; Region: PRC; pfam05239 398511007739 PRC-barrel domain; Region: PRC; pfam05239 398511007740 pantothenate kinase; Provisional; Region: PRK05439 398511007741 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 398511007742 ATP-binding site [chemical binding]; other site 398511007743 CoA-binding site [chemical binding]; other site 398511007744 Mg2+-binding site [ion binding]; other site 398511007745 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 398511007746 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 398511007747 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 398511007748 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 398511007749 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398511007750 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 398511007751 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 398511007752 DHH family; Region: DHH; pfam01368 398511007753 FOG: CBS domain [General function prediction only]; Region: COG0517 398511007754 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 398511007755 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 398511007756 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 398511007757 active site 398511007758 NTP binding site [chemical binding]; other site 398511007759 metal binding triad [ion binding]; metal-binding site 398511007760 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 398511007761 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 398511007762 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 398511007763 Transcriptional regulator [Transcription]; Region: LytR; COG1316 398511007764 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 398511007765 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 398511007766 dimer interface [polypeptide binding]; other site 398511007767 active site 398511007768 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 398511007769 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 398511007770 dimer interface [polypeptide binding]; other site 398511007771 active site 398511007772 CoA binding pocket [chemical binding]; other site 398511007773 ComZ; Region: ComZ; pfam10815 398511007774 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 398511007775 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 398511007776 putative ligand binding site [chemical binding]; other site 398511007777 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 398511007778 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 398511007779 G1 box; other site 398511007780 putative GEF interaction site [polypeptide binding]; other site 398511007781 GTP/Mg2+ binding site [chemical binding]; other site 398511007782 Switch I region; other site 398511007783 G2 box; other site 398511007784 G3 box; other site 398511007785 Switch II region; other site 398511007786 G4 box; other site 398511007787 G5 box; other site 398511007788 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 398511007789 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 398511007790 B12 binding domain; Region: B12-binding_2; pfam02607 398511007791 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; cd02065 398511007792 B12 binding site [chemical binding]; other site 398511007793 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398511007794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398511007795 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398511007796 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398511007797 YjzC-like protein; Region: YjzC; pfam14168 398511007798 ornithine carbamoyltransferase; Provisional; Region: PRK00779 398511007799 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398511007800 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 398511007801 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 398511007802 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398511007803 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 398511007804 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 398511007805 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398511007806 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398511007807 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 398511007808 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 398511007809 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 398511007810 catalytic site [active] 398511007811 subunit interface [polypeptide binding]; other site 398511007812 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 398511007813 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 398511007814 inhibitor-cofactor binding pocket; inhibition site 398511007815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511007816 catalytic residue [active] 398511007817 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 398511007818 nucleotide binding site [chemical binding]; other site 398511007819 N-acetyl-L-glutamate binding site [chemical binding]; other site 398511007820 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 398511007821 heterotetramer interface [polypeptide binding]; other site 398511007822 active site pocket [active] 398511007823 cleavage site 398511007824 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 398511007825 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 398511007826 Peroxiredoxin (PRX) family; composed of the different classes of PRXs including many proteins originally known as bacterioferritin comigratory proteins (BCP), based on their electrophoretic mobility before their function was identified. PRXs are...; Region: PRX_family; cd02971 398511007827 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 398511007828 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 398511007829 Cu(I) binding site [ion binding]; other site 398511007830 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 398511007831 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 398511007832 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 398511007833 active site 398511007834 motif I; other site 398511007835 motif II; other site 398511007836 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 398511007837 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398511007838 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511007839 Coenzyme A binding pocket [chemical binding]; other site 398511007840 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 398511007841 Carbon starvation protein CstA; Region: CstA; pfam02554 398511007842 Carbon starvation protein CstA; Region: CstA; pfam02554 398511007843 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 398511007844 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 398511007845 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 398511007846 active site 398511007847 phosphorylation site [posttranslational modification] 398511007848 intermolecular recognition site; other site 398511007849 dimerization interface [polypeptide binding]; other site 398511007850 LytTr DNA-binding domain; Region: LytTR; smart00850 398511007851 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 398511007852 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 398511007853 Histidine kinase; Region: His_kinase; pfam06580 398511007854 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 398511007855 ATP binding site [chemical binding]; other site 398511007856 Mg2+ binding site [ion binding]; other site 398511007857 G-X-G motif; other site 398511007858 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398511007859 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 398511007860 non-specific DNA binding site [nucleotide binding]; other site 398511007861 salt bridge; other site 398511007862 sequence-specific DNA binding site [nucleotide binding]; other site 398511007863 Cupin domain; Region: Cupin_2; pfam07883 398511007864 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 398511007865 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 398511007866 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 398511007867 SNF2 Helicase protein; Region: DUF3670; pfam12419 398511007868 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 398511007869 ATP binding site [chemical binding]; other site 398511007870 putative Mg++ binding site [ion binding]; other site 398511007871 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 398511007872 nucleotide binding region [chemical binding]; other site 398511007873 ATP-binding site [chemical binding]; other site 398511007874 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 398511007875 Uncharacterized conserved protein [Function unknown]; Region: COG1284 398511007876 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398511007877 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398511007878 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 398511007879 esterase; Provisional; Region: PRK10566 398511007880 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398511007881 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 398511007882 active site residue [active] 398511007883 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398511007884 Domain of unknown function DUF20; Region: UPF0118; pfam01594 398511007885 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398511007886 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398511007887 DNA binding site [nucleotide binding] 398511007888 domain linker motif; other site 398511007889 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 398511007890 putative dimerization interface [polypeptide binding]; other site 398511007891 putative ligand binding site [chemical binding]; other site 398511007892 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398511007893 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 398511007894 dimer interface [polypeptide binding]; other site 398511007895 conserved gate region; other site 398511007896 putative PBP binding loops; other site 398511007897 ABC-ATPase subunit interface; other site 398511007898 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 398511007899 dimer interface [polypeptide binding]; other site 398511007900 conserved gate region; other site 398511007901 putative PBP binding loops; other site 398511007902 ABC-ATPase subunit interface; other site 398511007903 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 398511007904 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 398511007905 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 398511007906 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 398511007907 Ca binding site [ion binding]; other site 398511007908 active site 398511007909 catalytic site [active] 398511007910 maltodextrin glucosidase; Provisional; Region: PRK10785 398511007911 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 398511007912 homodimer interface [polypeptide binding]; other site 398511007913 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 398511007914 active site 398511007915 homodimer interface [polypeptide binding]; other site 398511007916 catalytic site [active] 398511007917 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 398511007918 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 398511007919 Sporulation and spore germination; Region: Germane; pfam10646 398511007920 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 398511007921 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 398511007922 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 398511007923 DctM-like transporters; Region: DctM; pfam06808 398511007924 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398511007925 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398511007926 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 398511007927 putative active site [active] 398511007928 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 398511007929 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 398511007930 inhibitor-cofactor binding pocket; inhibition site 398511007931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511007932 catalytic residue [active] 398511007933 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398511007934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398511007935 NAD(P) binding site [chemical binding]; other site 398511007936 active site 398511007937 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 398511007938 DctM-like transporters; Region: DctM; pfam06808 398511007939 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 398511007940 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 398511007941 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 398511007942 membrane-bound complex binding site; other site 398511007943 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398511007944 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 398511007945 active site 398511007946 phosphorylation site [posttranslational modification] 398511007947 intermolecular recognition site; other site 398511007948 dimerization interface [polypeptide binding]; other site 398511007949 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 398511007950 Walker A motif; other site 398511007951 ATP binding site [chemical binding]; other site 398511007952 Walker B motif; other site 398511007953 arginine finger; other site 398511007954 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398511007955 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398511007956 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 398511007957 substrate binding pocket [chemical binding]; other site 398511007958 membrane-bound complex binding site; other site 398511007959 hinge residues; other site 398511007960 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398511007961 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 398511007962 putative active site [active] 398511007963 heme pocket [chemical binding]; other site 398511007964 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 398511007965 dimer interface [polypeptide binding]; other site 398511007966 phosphorylation site [posttranslational modification] 398511007967 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 398511007968 ATP binding site [chemical binding]; other site 398511007969 Mg2+ binding site [ion binding]; other site 398511007970 G-X-G motif; other site 398511007971 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 398511007972 Radical SAM superfamily; Region: Radical_SAM; pfam04055 398511007973 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 398511007974 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 398511007975 dimer interface [polypeptide binding]; other site 398511007976 FMN binding site [chemical binding]; other site 398511007977 NADPH bind site [chemical binding]; other site 398511007978 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 398511007979 membrane ATPase/protein kinase; Provisional; Region: PRK09435 398511007980 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 398511007981 Walker A; other site 398511007982 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 398511007983 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 398511007984 active site 398511007985 substrate binding site [chemical binding]; other site 398511007986 coenzyme B12 binding site [chemical binding]; other site 398511007987 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 398511007988 B12 binding site [chemical binding]; other site 398511007989 cobalt ligand [ion binding]; other site 398511007990 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 398511007991 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 398511007992 heterodimer interface [polypeptide binding]; other site 398511007993 substrate interaction site [chemical binding]; other site 398511007994 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 398511007995 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 398511007996 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 398511007997 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 398511007998 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 398511007999 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 398511008000 carboxyltransferase (CT) interaction site; other site 398511008001 biotinylation site [posttranslational modification]; other site 398511008002 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398511008003 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398511008004 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 398511008005 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 398511008006 Amidinotransferase; Region: Amidinotransf; pfam02274 398511008007 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398511008008 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 398511008009 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 398511008010 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398511008011 IDEAL domain; Region: IDEAL; cl07452 398511008012 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 398511008013 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 398511008014 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 398511008015 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398511008016 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 398511008017 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398511008018 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 398511008019 active site 398511008020 phosphorylation site [posttranslational modification] 398511008021 intermolecular recognition site; other site 398511008022 dimerization interface [polypeptide binding]; other site 398511008023 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 398511008024 putative CheA interaction surface; other site 398511008025 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 398511008026 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 398511008027 putative binding surface; other site 398511008028 active site 398511008029 P2 response regulator binding domain; Region: P2; pfam07194 398511008030 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 398511008031 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 398511008032 ATP binding site [chemical binding]; other site 398511008033 Mg2+ binding site [ion binding]; other site 398511008034 G-X-G motif; other site 398511008035 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 398511008036 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398511008037 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398511008038 metal binding site [ion binding]; metal-binding site 398511008039 active site 398511008040 I-site; other site 398511008041 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 398511008042 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 398511008043 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 398511008044 motif II; other site 398511008045 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398511008046 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 398511008047 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 398511008048 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 398511008049 Walker A/P-loop; other site 398511008050 ATP binding site [chemical binding]; other site 398511008051 Q-loop/lid; other site 398511008052 ABC transporter signature motif; other site 398511008053 Walker B; other site 398511008054 D-loop; other site 398511008055 H-loop/switch region; other site 398511008056 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 398511008057 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 398511008058 dimer interface [polypeptide binding]; other site 398511008059 conserved gate region; other site 398511008060 ABC-ATPase subunit interface; other site 398511008061 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 398511008062 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 398511008063 dimer interface [polypeptide binding]; other site 398511008064 conserved gate region; other site 398511008065 ABC-ATPase subunit interface; other site 398511008066 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 398511008067 Part of AAA domain; Region: AAA_19; pfam13245 398511008068 Family description; Region: UvrD_C_2; pfam13538 398511008069 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 398511008070 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 398511008071 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 398511008072 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398511008073 Coenzyme A binding pocket [chemical binding]; other site 398511008074 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 398511008075 hypothetical protein; Provisional; Region: PRK13673 398511008076 Arginase family; Region: Arginase; cd09989 398511008077 agmatinase; Region: agmatinase; TIGR01230 398511008078 active site 398511008079 Mn binding site [ion binding]; other site 398511008080 oligomer interface [polypeptide binding]; other site 398511008081 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 398511008082 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 398511008083 inhibitor-cofactor binding pocket; inhibition site 398511008084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511008085 catalytic residue [active] 398511008086 PAS domain; Region: PAS; smart00091 398511008087 PAS domain; Region: PAS_9; pfam13426 398511008088 putative active site [active] 398511008089 heme pocket [chemical binding]; other site 398511008090 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398511008091 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 398511008092 Walker A motif; other site 398511008093 ATP binding site [chemical binding]; other site 398511008094 Walker B motif; other site 398511008095 arginine finger; other site 398511008096 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398511008097 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 398511008098 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 398511008099 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 398511008100 Glutamate binding site [chemical binding]; other site 398511008101 homodimer interface [polypeptide binding]; other site 398511008102 NAD binding site [chemical binding]; other site 398511008103 catalytic residues [active] 398511008104 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 398511008105 PhoU domain; Region: PhoU; pfam01895 398511008106 PhoU domain; Region: PhoU; pfam01895 398511008107 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 398511008108 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 398511008109 Walker A/P-loop; other site 398511008110 ATP binding site [chemical binding]; other site 398511008111 Q-loop/lid; other site 398511008112 ABC transporter signature motif; other site 398511008113 Walker B; other site 398511008114 D-loop; other site 398511008115 H-loop/switch region; other site 398511008116 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 398511008117 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 398511008118 dimer interface [polypeptide binding]; other site 398511008119 conserved gate region; other site 398511008120 putative PBP binding loops; other site 398511008121 ABC-ATPase subunit interface; other site 398511008122 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 398511008123 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 398511008124 dimer interface [polypeptide binding]; other site 398511008125 conserved gate region; other site 398511008126 putative PBP binding loops; other site 398511008127 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 398511008128 ABC-ATPase subunit interface; other site 398511008129 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 398511008130 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 398511008131 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398511008132 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398511008133 dimer interface [polypeptide binding]; other site 398511008134 putative CheW interface [polypeptide binding]; other site 398511008135 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 398511008136 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 398511008137 THF binding site; other site 398511008138 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 398511008139 substrate binding site [chemical binding]; other site 398511008140 THF binding site; other site 398511008141 zinc-binding site [ion binding]; other site 398511008142 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 398511008143 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 398511008144 MgtE intracellular N domain; Region: MgtE_N; pfam03448 398511008145 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 398511008146 Divalent cation transporter; Region: MgtE; pfam01769 398511008147 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 398511008148 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 398511008149 P loop; other site 398511008150 Nucleotide binding site [chemical binding]; other site 398511008151 DTAP/Switch II; other site 398511008152 Switch I; other site 398511008153 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 398511008154 DTAP/Switch II; other site 398511008155 Switch I; other site 398511008156 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 398511008157 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398511008158 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 398511008159 active site 398511008160 arsenical pump membrane protein; Provisional; Region: PRK15445 398511008161 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 398511008162 transmembrane helices; other site 398511008163 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 398511008164 dimerization interface [polypeptide binding]; other site 398511008165 putative DNA binding site [nucleotide binding]; other site 398511008166 putative Zn2+ binding site [ion binding]; other site 398511008167 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 398511008168 dimerization interface [polypeptide binding]; other site 398511008169 putative DNA binding site [nucleotide binding]; other site 398511008170 putative Zn2+ binding site [ion binding]; other site 398511008171 Predicted permeases [General function prediction only]; Region: COG0701 398511008172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398511008173 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398511008174 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398511008175 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 398511008176 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 398511008177 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 398511008178 active site 398511008179 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 398511008180 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 398511008181 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 398511008182 PhoU domain; Region: PhoU; pfam01895 398511008183 PhoU domain; Region: PhoU; pfam01895 398511008184 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 398511008185 hypothetical protein; Provisional; Region: PRK14553 398511008186 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 398511008187 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 398511008188 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 398511008189 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 398511008190 homodimer interface [polypeptide binding]; other site 398511008191 oligonucleotide binding site [chemical binding]; other site 398511008192 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 398511008193 Peptidase family M50; Region: Peptidase_M50; pfam02163 398511008194 active site 398511008195 putative substrate binding region [chemical binding]; other site 398511008196 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398511008197 Peptidase family M23; Region: Peptidase_M23; pfam01551 398511008198 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 398511008199 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 398511008200 GTP binding site; other site 398511008201 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 398511008202 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398511008203 active site 398511008204 catalytic tetrad [active] 398511008205 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 398511008206 MoaE interaction surface [polypeptide binding]; other site 398511008207 MoeB interaction surface [polypeptide binding]; other site 398511008208 thiocarboxylated glycine; other site 398511008209 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 398511008210 MoaE homodimer interface [polypeptide binding]; other site 398511008211 MoaD interaction [polypeptide binding]; other site 398511008212 active site residues [active] 398511008213 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 398511008214 Walker A motif; other site 398511008215 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 398511008216 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 398511008217 dimer interface [polypeptide binding]; other site 398511008218 putative functional site; other site 398511008219 putative MPT binding site; other site 398511008220 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 398511008221 MPT binding site; other site 398511008222 trimer interface [polypeptide binding]; other site 398511008223 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 398511008224 trimer interface [polypeptide binding]; other site 398511008225 dimer interface [polypeptide binding]; other site 398511008226 putative active site [active] 398511008227 intracellular protease, PfpI family; Region: PfpI; TIGR01382 398511008228 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 398511008229 proposed catalytic triad [active] 398511008230 conserved cys residue [active] 398511008231 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 398511008232 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 398511008233 Switch I; other site 398511008234 Switch II; other site 398511008235 septum formation inhibitor; Reviewed; Region: minC; PRK00513 398511008236 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 398511008237 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 398511008238 rod shape-determining protein MreD; Region: MreD; cl01087 398511008239 rod shape-determining protein MreC; Provisional; Region: PRK13922 398511008240 rod shape-determining protein MreC; Region: MreC; pfam04085 398511008241 rod shape-determining protein MreB; Provisional; Region: PRK13927 398511008242 MreB and similar proteins; Region: MreB_like; cd10225 398511008243 nucleotide binding site [chemical binding]; other site 398511008244 Mg binding site [ion binding]; other site 398511008245 putative protofilament interaction site [polypeptide binding]; other site 398511008246 RodZ interaction site [polypeptide binding]; other site 398511008247 hypothetical protein; Reviewed; Region: PRK00024 398511008248 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 398511008249 MPN+ (JAMM) motif; other site 398511008250 Zinc-binding site [ion binding]; other site 398511008251 Maf-like protein; Region: Maf; pfam02545 398511008252 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 398511008253 active site 398511008254 dimer interface [polypeptide binding]; other site 398511008255 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 398511008256 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 398511008257 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 398511008258 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 398511008259 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 398511008260 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398511008261 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398511008262 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 398511008263 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 398511008264 Walker A motif; other site 398511008265 ATP binding site [chemical binding]; other site 398511008266 Walker B motif; other site 398511008267 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398511008268 type II secretion system protein E; Region: type_II_gspE; TIGR02533 398511008269 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 398511008270 Walker A motif; other site 398511008271 ATP binding site [chemical binding]; other site 398511008272 Walker B motif; other site 398511008273 VanW like protein; Region: VanW; pfam04294 398511008274 G5 domain; Region: G5; pfam07501 398511008275 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 398511008276 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398511008277 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398511008278 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 398511008279 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398511008280 active site 398511008281 HIGH motif; other site 398511008282 nucleotide binding site [chemical binding]; other site 398511008283 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398511008284 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 398511008285 active site 398511008286 KMSKS motif; other site 398511008287 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 398511008288 tRNA binding surface [nucleotide binding]; other site 398511008289 anticodon binding site; other site 398511008290 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 398511008291 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 398511008292 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 398511008293 stage VI sporulation protein D; Region: spore_VI_D; TIGR02907 398511008294 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398511008295 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 398511008296 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 398511008297 inhibitor-cofactor binding pocket; inhibition site 398511008298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511008299 catalytic residue [active] 398511008300 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 398511008301 dimer interface [polypeptide binding]; other site 398511008302 active site 398511008303 Schiff base residues; other site 398511008304 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 398511008305 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 398511008306 active site 398511008307 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 398511008308 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 398511008309 domain interfaces; other site 398511008310 active site 398511008311 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 398511008312 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 398511008313 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 398511008314 tRNA; other site 398511008315 putative tRNA binding site [nucleotide binding]; other site 398511008316 putative NADP binding site [chemical binding]; other site 398511008317 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 398511008318 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 398511008319 G1 box; other site 398511008320 GTP/Mg2+ binding site [chemical binding]; other site 398511008321 Switch I region; other site 398511008322 G2 box; other site 398511008323 G3 box; other site 398511008324 Switch II region; other site 398511008325 G4 box; other site 398511008326 G5 box; other site 398511008327 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 398511008328 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 398511008329 Walker A motif; other site 398511008330 ATP binding site [chemical binding]; other site 398511008331 Walker B motif; other site 398511008332 arginine finger; other site 398511008333 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 398511008334 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 398511008335 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 398511008336 Walker A motif; other site 398511008337 ATP binding site [chemical binding]; other site 398511008338 Walker B motif; other site 398511008339 arginine finger; other site 398511008340 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 398511008341 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 398511008342 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 398511008343 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 398511008344 Walker A motif; other site 398511008345 ATP binding site [chemical binding]; other site 398511008346 Walker B motif; other site 398511008347 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398511008348 trigger factor; Provisional; Region: tig; PRK01490 398511008349 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398511008350 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 398511008351 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398511008352 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 398511008353 heme-binding site [chemical binding]; other site 398511008354 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398511008355 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398511008356 dimer interface [polypeptide binding]; other site 398511008357 putative CheW interface [polypeptide binding]; other site 398511008358 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 398511008359 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 398511008360 substrate binding site [chemical binding]; other site 398511008361 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 398511008362 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 398511008363 substrate binding site [chemical binding]; other site 398511008364 ligand binding site [chemical binding]; other site 398511008365 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 398511008366 tartrate dehydrogenase; Region: TTC; TIGR02089 398511008367 2-isopropylmalate synthase; Validated; Region: PRK00915 398511008368 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 398511008369 active site 398511008370 catalytic residues [active] 398511008371 metal binding site [ion binding]; metal-binding site 398511008372 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 398511008373 ketol-acid reductoisomerase; Provisional; Region: PRK05479 398511008374 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 398511008375 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 398511008376 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 398511008377 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 398511008378 putative valine binding site [chemical binding]; other site 398511008379 dimer interface [polypeptide binding]; other site 398511008380 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 398511008381 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 398511008382 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398511008383 PYR/PP interface [polypeptide binding]; other site 398511008384 dimer interface [polypeptide binding]; other site 398511008385 TPP binding site [chemical binding]; other site 398511008386 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398511008387 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 398511008388 TPP-binding site [chemical binding]; other site 398511008389 dimer interface [polypeptide binding]; other site 398511008390 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 398511008391 6-phosphogluconate dehydratase; Region: edd; TIGR01196 398511008392 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 398511008393 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 398511008394 homodimer interface [polypeptide binding]; other site 398511008395 substrate-cofactor binding pocket; other site 398511008396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511008397 catalytic residue [active] 398511008398 potential protein location (hypothetical protein BpOF4_03050 [Bacillus pseudofirmus OF4]) that overlaps RNA (tRNA-G); potential protein location (hypothetical protein BpOF4_03050 [Bacillus pseudofirmus OF4]) that overlaps RNA (tRNA-R) 398511008399 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 398511008400 active site 398511008401 metal binding site [ion binding]; metal-binding site 398511008402 homotetramer interface [polypeptide binding]; other site 398511008403 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 398511008404 active site 398511008405 dimerization interface [polypeptide binding]; other site 398511008406 ribonuclease PH; Reviewed; Region: rph; PRK00173 398511008407 Ribonuclease PH; Region: RNase_PH_bact; cd11362 398511008408 hexamer interface [polypeptide binding]; other site 398511008409 active site 398511008410 Sporulation and spore germination; Region: Germane; pfam10646 398511008411 Spore germination protein [General function prediction only]; Region: COG5401 398511008412 Sporulation and spore germination; Region: Germane; pfam10646 398511008413 glutamate racemase; Provisional; Region: PRK00865 398511008414 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398511008415 MarR family; Region: MarR; pfam01047 398511008416 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 398511008417 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 398511008418 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 398511008419 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 398511008420 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 398511008421 dimerization domain swap beta strand [polypeptide binding]; other site 398511008422 regulatory protein interface [polypeptide binding]; other site 398511008423 active site 398511008424 regulatory phosphorylation site [posttranslational modification]; other site 398511008425 CAT RNA binding domain; Region: CAT_RBD; pfam03123 398511008426 PRD domain; Region: PRD; pfam00874 398511008427 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398511008428 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 398511008429 DNA binding residues [nucleotide binding] 398511008430 dimerization interface [polypeptide binding]; other site 398511008431 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 398511008432 active site 398511008433 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 398511008434 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 398511008435 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 398511008436 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 398511008437 L-aspartate oxidase; Provisional; Region: PRK06175 398511008438 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 398511008439 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 398511008440 putative Iron-sulfur protein interface [polypeptide binding]; other site 398511008441 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 398511008442 proximal heme binding site [chemical binding]; other site 398511008443 distal heme binding site [chemical binding]; other site 398511008444 putative dimer interface [polypeptide binding]; other site 398511008445 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 398511008446 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 398511008447 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 398511008448 aspartate kinase; Reviewed; Region: PRK06635 398511008449 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 398511008450 putative catalytic residues [active] 398511008451 putative nucleotide binding site [chemical binding]; other site 398511008452 putative aspartate binding site [chemical binding]; other site 398511008453 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 398511008454 putative allosteric regulatory site; other site 398511008455 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 398511008456 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 398511008457 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 398511008458 GIY-YIG motif/motif A; other site 398511008459 active site 398511008460 catalytic site [active] 398511008461 putative DNA binding site [nucleotide binding]; other site 398511008462 metal binding site [ion binding]; metal-binding site 398511008463 UvrB/uvrC motif; Region: UVR; pfam02151 398511008464 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 398511008465 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 398511008466 catalytic residues [active] 398511008467 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 398511008468 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 398511008469 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 398511008470 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 398511008471 Ligand binding site [chemical binding]; other site 398511008472 Electron transfer flavoprotein domain; Region: ETF; pfam01012 398511008473 enoyl-CoA hydratase; Provisional; Region: PRK07658 398511008474 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398511008475 substrate binding site [chemical binding]; other site 398511008476 oxyanion hole (OAH) forming residues; other site 398511008477 trimer interface [polypeptide binding]; other site 398511008478 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398511008479 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398511008480 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 398511008481 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 398511008482 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 398511008483 acyl-activating enzyme (AAE) consensus motif; other site 398511008484 putative AMP binding site [chemical binding]; other site 398511008485 putative active site [active] 398511008486 putative CoA binding site [chemical binding]; other site 398511008487 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 398511008488 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 398511008489 acyl-activating enzyme (AAE) consensus motif; other site 398511008490 putative AMP binding site [chemical binding]; other site 398511008491 putative active site [active] 398511008492 putative CoA binding site [chemical binding]; other site 398511008493 Predicted membrane protein [Function unknown]; Region: COG3766 398511008494 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 398511008495 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 398511008496 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 398511008497 MutS domain III; Region: MutS_III; pfam05192 398511008498 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 398511008499 Walker A/P-loop; other site 398511008500 ATP binding site [chemical binding]; other site 398511008501 Q-loop/lid; other site 398511008502 ABC transporter signature motif; other site 398511008503 Walker B; other site 398511008504 D-loop; other site 398511008505 H-loop/switch region; other site 398511008506 Smr domain; Region: Smr; pfam01713 398511008507 hypothetical protein; Provisional; Region: PRK08609 398511008508 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 398511008509 active site 398511008510 primer binding site [nucleotide binding]; other site 398511008511 NTP binding site [chemical binding]; other site 398511008512 metal binding triad [ion binding]; metal-binding site 398511008513 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 398511008514 active site 398511008515 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 398511008516 Colicin V production protein; Region: Colicin_V; pfam02674 398511008517 Cell division protein ZapA; Region: ZapA; cl01146 398511008518 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 398511008519 putative active site [active] 398511008520 putative catalytic site [active] 398511008521 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 398511008522 PLD-like domain; Region: PLDc_2; pfam13091 398511008523 putative active site [active] 398511008524 putative catalytic site [active] 398511008525 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 398511008526 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 398511008527 putative tRNA-binding site [nucleotide binding]; other site 398511008528 B3/4 domain; Region: B3_4; pfam03483 398511008529 tRNA synthetase B5 domain; Region: B5; smart00874 398511008530 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 398511008531 dimer interface [polypeptide binding]; other site 398511008532 motif 1; other site 398511008533 motif 3; other site 398511008534 motif 2; other site 398511008535 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 398511008536 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 398511008537 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 398511008538 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 398511008539 dimer interface [polypeptide binding]; other site 398511008540 motif 1; other site 398511008541 active site 398511008542 motif 2; other site 398511008543 motif 3; other site 398511008544 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 398511008545 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 398511008546 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 398511008547 small acid-soluble spore protein SspI; Provisional; Region: PRK02955 398511008548 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 398511008549 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 398511008550 oligomer interface [polypeptide binding]; other site 398511008551 active site 398511008552 metal binding site [ion binding]; metal-binding site 398511008553 dUTPase; Region: dUTPase_2; pfam08761 398511008554 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 398511008555 active site 398511008556 homodimer interface [polypeptide binding]; other site 398511008557 metal binding site [ion binding]; metal-binding site 398511008558 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 398511008559 Uncharacterized conserved protein [Function unknown]; Region: COG0398 398511008560 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 398511008561 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 398511008562 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 398511008563 23S rRNA binding site [nucleotide binding]; other site 398511008564 L21 binding site [polypeptide binding]; other site 398511008565 L13 binding site [polypeptide binding]; other site 398511008566 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 398511008567 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 398511008568 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 398511008569 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 398511008570 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 398511008571 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 398511008572 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 398511008573 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 398511008574 active site 398511008575 dimer interface [polypeptide binding]; other site 398511008576 motif 1; other site 398511008577 motif 2; other site 398511008578 motif 3; other site 398511008579 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 398511008580 anticodon binding site; other site 398511008581 putative sporulation protein YtxC; Region: spo_ytxC; TIGR02834 398511008582 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 398511008583 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 398511008584 FeS/SAM binding site; other site 398511008585 primosomal protein DnaI; Reviewed; Region: PRK08939 398511008586 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 398511008587 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 398511008588 Walker A motif; other site 398511008589 ATP binding site [chemical binding]; other site 398511008590 Walker B motif; other site 398511008591 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 398511008592 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 398511008593 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 398511008594 ATP cone domain; Region: ATP-cone; pfam03477 398511008595 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 398511008596 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 398511008597 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 398511008598 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 398511008599 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 398511008600 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 398511008601 CoA-binding site [chemical binding]; other site 398511008602 ATP-binding [chemical binding]; other site 398511008603 Predicted membrane protein [Function unknown]; Region: COG1971 398511008604 formamidopyrimidine-DNA glycosylase (fpg); Region: fpg; TIGR00577 398511008605 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 398511008606 DNA binding site [nucleotide binding] 398511008607 catalytic residue [active] 398511008608 H2TH interface [polypeptide binding]; other site 398511008609 putative catalytic residues [active] 398511008610 turnover-facilitating residue; other site 398511008611 intercalation triad [nucleotide binding]; other site 398511008612 8OG recognition residue [nucleotide binding]; other site 398511008613 putative reading head residues; other site 398511008614 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 398511008615 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 398511008616 DNA polymerase I; Provisional; Region: PRK05755 398511008617 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 398511008618 active site 398511008619 metal binding site 1 [ion binding]; metal-binding site 398511008620 putative 5' ssDNA interaction site; other site 398511008621 metal binding site 3; metal-binding site 398511008622 metal binding site 2 [ion binding]; metal-binding site 398511008623 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 398511008624 putative DNA binding site [nucleotide binding]; other site 398511008625 putative metal binding site [ion binding]; other site 398511008626 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 398511008627 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 398511008628 active site 398511008629 DNA binding site [nucleotide binding] 398511008630 catalytic site [active] 398511008631 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398511008632 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 398511008633 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 398511008634 HflK protein; Region: hflK; TIGR01933 398511008635 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 398511008636 dimerization interface [polypeptide binding]; other site 398511008637 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398511008638 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 398511008639 putative active site [active] 398511008640 heme pocket [chemical binding]; other site 398511008641 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 398511008642 dimer interface [polypeptide binding]; other site 398511008643 phosphorylation site [posttranslational modification] 398511008644 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 398511008645 ATP binding site [chemical binding]; other site 398511008646 Mg2+ binding site [ion binding]; other site 398511008647 G-X-G motif; other site 398511008648 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511008649 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 398511008650 active site 398511008651 phosphorylation site [posttranslational modification] 398511008652 intermolecular recognition site; other site 398511008653 dimerization interface [polypeptide binding]; other site 398511008654 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 398511008655 DNA binding site [nucleotide binding] 398511008656 malate dehydrogenase; Reviewed; Region: PRK06223 398511008657 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 398511008658 NAD(P) binding site [chemical binding]; other site 398511008659 dimer interface [polypeptide binding]; other site 398511008660 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398511008661 substrate binding site [chemical binding]; other site 398511008662 isocitrate dehydrogenase; Reviewed; Region: PRK07006 398511008663 isocitrate dehydrogenase; Validated; Region: PRK06451 398511008664 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 398511008665 Citrate synthase; Region: Citrate_synt; pfam00285 398511008666 dimer interface [polypeptide binding]; other site 398511008667 active site 398511008668 oxalacetate/citrate binding site [chemical binding]; other site 398511008669 citrylCoA binding site [chemical binding]; other site 398511008670 coenzyme A binding site [chemical binding]; other site 398511008671 catalytic triad [active] 398511008672 Protein of unknown function (DUF441); Region: DUF441; pfam04284 398511008673 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 398511008674 pyruvate kinase; Provisional; Region: PRK06354 398511008675 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; cd00288 398511008676 domain interfaces; other site 398511008677 active site 398511008678 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 398511008679 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 398511008680 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 398511008681 active site 398511008682 ADP/pyrophosphate binding site [chemical binding]; other site 398511008683 dimerization interface [polypeptide binding]; other site 398511008684 allosteric effector site; other site 398511008685 fructose-1,6-bisphosphate binding site; other site 398511008686 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 398511008687 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 398511008688 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 398511008689 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 398511008690 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 398511008691 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398511008692 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398511008693 DNA-binding site [nucleotide binding]; DNA binding site 398511008694 FCD domain; Region: FCD; pfam07729 398511008695 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 398511008696 Malic enzyme, N-terminal domain; Region: malic; pfam00390 398511008697 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 398511008698 putative NAD(P) binding site [chemical binding]; other site 398511008699 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 398511008700 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 398511008701 active site 398511008702 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 398511008703 generic binding surface II; other site 398511008704 generic binding surface I; other site 398511008705 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 398511008706 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 398511008707 DHH family; Region: DHH; pfam01368 398511008708 DHHA1 domain; Region: DHHA1; pfam02272 398511008709 YtpI-like protein; Region: YtpI; pfam14007 398511008710 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 398511008711 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398511008712 DNA-binding site [nucleotide binding]; DNA binding site 398511008713 DRTGG domain; Region: DRTGG; pfam07085 398511008714 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 398511008715 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 398511008716 active site 2 [active] 398511008717 active site 1 [active] 398511008718 metal-dependent hydrolase; Provisional; Region: PRK00685 398511008719 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 398511008720 Uncharacterized conserved protein [Function unknown]; Region: COG1284 398511008721 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398511008722 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 398511008723 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 398511008724 classical (c) SDRs; Region: SDR_c; cd05233 398511008725 NAD(P) binding site [chemical binding]; other site 398511008726 active site 398511008727 argininosuccinate lyase; Provisional; Region: PRK00855 398511008728 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 398511008729 active sites [active] 398511008730 tetramer interface [polypeptide binding]; other site 398511008731 argininosuccinate synthase; Provisional; Region: PRK13820 398511008732 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 398511008733 ANP binding site [chemical binding]; other site 398511008734 Substrate Binding Site II [chemical binding]; other site 398511008735 Substrate Binding Site I [chemical binding]; other site 398511008736 EcsC protein family; Region: EcsC; pfam12787 398511008737 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 398511008738 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 398511008739 generic binding surface I; other site 398511008740 generic binding surface II; other site 398511008741 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398511008742 Zn2+ binding site [ion binding]; other site 398511008743 Mg2+ binding site [ion binding]; other site 398511008744 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 398511008745 propionate/acetate kinase; Provisional; Region: PRK12379 398511008746 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398511008747 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 398511008748 S-adenosylmethionine binding site [chemical binding]; other site 398511008749 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 398511008750 dimer interface [polypeptide binding]; other site 398511008751 catalytic triad [active] 398511008752 peroxidatic and resolving cysteines [active] 398511008753 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 398511008754 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 398511008755 RDD family; Region: RDD; pfam06271 398511008756 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 398511008757 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 398511008758 tandem repeat interface [polypeptide binding]; other site 398511008759 oligomer interface [polypeptide binding]; other site 398511008760 active site residues [active] 398511008761 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03501 398511008762 ATP-NAD kinase; Region: NAD_kinase; pfam01513 398511008763 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 398511008764 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 398511008765 active site 398511008766 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 398511008767 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 398511008768 active site 398511008769 acyl-activating enzyme (AAE) consensus motif; other site 398511008770 putative CoA binding site [chemical binding]; other site 398511008771 AMP binding site [chemical binding]; other site 398511008772 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 398511008773 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 398511008774 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 398511008775 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 398511008776 Ligand Binding Site [chemical binding]; other site 398511008777 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 398511008778 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 398511008779 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398511008780 catalytic residue [active] 398511008781 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 398511008782 septation ring formation regulator EzrA; Provisional; Region: PRK04778 398511008783 histidinol-phosphatase; Reviewed; Region: PRK08123 398511008784 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 398511008785 active site 398511008786 dimer interface [polypeptide binding]; other site 398511008787 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398511008788 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398511008789 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 398511008790 GAF domain; Region: GAF_2; pfam13185 398511008791 GAF domain; Region: GAF_2; pfam13185 398511008792 GAF domain; Region: GAF_3; pfam13492 398511008793 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398511008794 GAF domain; Region: GAF_3; pfam13492 398511008795 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398511008796 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398511008797 metal binding site [ion binding]; metal-binding site 398511008798 active site 398511008799 I-site; other site 398511008800 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 398511008801 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 398511008802 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 398511008803 RNA binding surface [nucleotide binding]; other site 398511008804 chromosome segregation protein; Provisional; Region: PRK01156 398511008805 Predicted transcriptional regulator [Transcription]; Region: COG4189 398511008806 TIR domain; Region: TIR_2; pfam13676 398511008807 Helix-turn-helix domain; Region: HTH_17; pfam12728 398511008808 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 398511008809 putative active site [active] 398511008810 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398511008811 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 398511008812 non-specific DNA binding site [nucleotide binding]; other site 398511008813 salt bridge; other site 398511008814 sequence-specific DNA binding site [nucleotide binding]; other site 398511008815 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398511008816 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 398511008817 Walker A motif; other site 398511008818 ATP binding site [chemical binding]; other site 398511008819 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398511008820 Integrase core domain; Region: rve; pfam00665 398511008821 Helix-turn-helix domain; Region: HTH_38; pfam13936 398511008822 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398511008823 Integrase core domain; Region: rve; pfam00665 398511008824 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398511008825 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 398511008826 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 398511008827 Walker A motif; other site 398511008828 ATP binding site [chemical binding]; other site 398511008829 Walker B motif; other site 398511008830 Divergent AAA domain; Region: AAA_4; pfam04326 398511008831 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 398511008832 catalytic core [active] 398511008833 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 398511008834 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 398511008835 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 398511008836 ATP binding site [chemical binding]; other site 398511008837 putative Mg++ binding site [ion binding]; other site 398511008838 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 398511008839 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 398511008840 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 398511008841 HsdM N-terminal domain; Region: HsdM_N; pfam12161 398511008842 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 398511008843 Methyltransferase domain; Region: Methyltransf_26; pfam13659 398511008844 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 398511008845 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 398511008846 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 398511008847 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398511008848 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 398511008849 Int/Topo IB signature motif; other site 398511008850 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 398511008851 Int/Topo IB signature motif; other site 398511008852 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 398511008853 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 398511008854 active site 398511008855 HIGH motif; other site 398511008856 dimer interface [polypeptide binding]; other site 398511008857 KMSKS motif; other site 398511008858 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 398511008859 RNA binding surface [nucleotide binding]; other site 398511008860 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 398511008861 Transglycosylase; Region: Transgly; pfam00912 398511008862 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 398511008863 acetyl-CoA synthetase; Provisional; Region: PRK04319 398511008864 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 398511008865 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 398511008866 active site 398511008867 acyl-activating enzyme (AAE) consensus motif; other site 398511008868 putative CoA binding site [chemical binding]; other site 398511008869 AMP binding site [chemical binding]; other site 398511008870 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398511008871 Coenzyme A binding pocket [chemical binding]; other site 398511008872 FOG: CBS domain [General function prediction only]; Region: COG0517 398511008873 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 398511008874 C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB; Region: ACT_AcuB; cd04883 398511008875 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 398511008876 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 398511008877 active site 398511008878 Zn binding site [ion binding]; other site 398511008879 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 398511008880 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 398511008881 flagellar motor protein MotS; Reviewed; Region: PRK06925 398511008882 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 398511008883 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398511008884 ligand binding site [chemical binding]; other site 398511008885 flagellar motor protein MotP; Reviewed; Region: PRK06926 398511008886 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398511008887 catabolite control protein A; Region: ccpA; TIGR01481 398511008888 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398511008889 DNA binding site [nucleotide binding] 398511008890 domain linker motif; other site 398511008891 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 398511008892 dimerization interface [polypeptide binding]; other site 398511008893 effector binding site; other site 398511008894 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 398511008895 Chorismate mutase type II; Region: CM_2; cl00693 398511008896 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 398511008897 short chain dehydrogenase; Provisional; Region: PRK06701 398511008898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398511008899 NAD(P) binding site [chemical binding]; other site 398511008900 active site 398511008901 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 398511008902 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 398511008903 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 398511008904 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 398511008905 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 398511008906 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398511008907 NAD binding site [chemical binding]; other site 398511008908 catalytic Zn binding site [ion binding]; other site 398511008909 structural Zn binding site [ion binding]; other site 398511008910 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 398511008911 active site 398511008912 Zn binding site [ion binding]; other site 398511008913 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 398511008914 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398511008915 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398511008916 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398511008917 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 398511008918 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup B. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_B; cd01571 398511008919 active site 398511008920 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 398511008921 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 398511008922 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 398511008923 hypothetical protein; Provisional; Region: PRK13668 398511008924 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 398511008925 catalytic residues [active] 398511008926 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 398511008927 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 398511008928 YtoQ family protein; Region: YtoQ_fam; TIGR03646 398511008929 NTPase; Reviewed; Region: PRK03114 398511008930 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 398511008931 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 398511008932 oligomer interface [polypeptide binding]; other site 398511008933 active site 398511008934 metal binding site [ion binding]; metal-binding site 398511008935 Predicted small secreted protein [Function unknown]; Region: COG5584 398511008936 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398511008937 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398511008938 acyl-CoA synthetase; Validated; Region: PRK06839 398511008939 acyl-activating enzyme (AAE) consensus motif; other site 398511008940 AMP binding site [chemical binding]; other site 398511008941 active site 398511008942 CoA binding site [chemical binding]; other site 398511008943 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398511008944 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398511008945 hypothetical protein; Validated; Region: PRK06840 398511008946 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 398511008947 active site 398511008948 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398511008949 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 398511008950 TM-ABC transporter signature motif; other site 398511008951 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398511008952 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 398511008953 TM-ABC transporter signature motif; other site 398511008954 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398511008955 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398511008956 Walker A/P-loop; other site 398511008957 ATP binding site [chemical binding]; other site 398511008958 Q-loop/lid; other site 398511008959 ABC transporter signature motif; other site 398511008960 Walker B; other site 398511008961 D-loop; other site 398511008962 H-loop/switch region; other site 398511008963 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398511008964 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398511008965 Walker A/P-loop; other site 398511008966 ATP binding site [chemical binding]; other site 398511008967 Q-loop/lid; other site 398511008968 ABC transporter signature motif; other site 398511008969 Walker B; other site 398511008970 D-loop; other site 398511008971 H-loop/switch region; other site 398511008972 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398511008973 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 398511008974 putative ligand binding site [chemical binding]; other site 398511008975 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398511008976 Putative serine esterase (DUF676); Region: DUF676; pfam05057 398511008977 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 398511008978 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 398511008979 binding surface 398511008980 TPR motif; other site 398511008981 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 398511008982 binding surface 398511008983 TPR motif; other site 398511008984 Bacterial transcriptional activator domain; Region: BTAD; smart01043 398511008985 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 398511008986 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398511008987 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 398511008988 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 398511008989 S-adenosylmethionine binding site [chemical binding]; other site 398511008990 YtzH-like protein; Region: YtzH; pfam14165 398511008991 Phosphotransferase enzyme family; Region: APH; pfam01636 398511008992 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 398511008993 active site 398511008994 substrate binding site [chemical binding]; other site 398511008995 ATP binding site [chemical binding]; other site 398511008996 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 398511008997 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 398511008998 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 398511008999 putative active site [active] 398511009000 putative substrate binding site [chemical binding]; other site 398511009001 putative cosubstrate binding site; other site 398511009002 catalytic site [active] 398511009003 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 398511009004 LrgB-like family; Region: LrgB; pfam04172 398511009005 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 398511009006 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 398511009007 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 398511009008 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 398511009009 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 398511009010 dimer interface [polypeptide binding]; other site 398511009011 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511009012 catalytic residue [active] 398511009013 dipeptidase PepV; Reviewed; Region: PRK07318 398511009014 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 398511009015 active site 398511009016 metal binding site [ion binding]; metal-binding site 398511009017 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 398511009018 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398511009019 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 398511009020 RNA binding surface [nucleotide binding]; other site 398511009021 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 398511009022 active site 398511009023 uracil binding [chemical binding]; other site 398511009024 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 398511009025 cell division protein FtsW; Region: ftsW; TIGR02614 398511009026 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 398511009027 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 398511009028 HI0933-like protein; Region: HI0933_like; pfam03486 398511009029 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398511009030 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 398511009031 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 398511009032 HIGH motif; other site 398511009033 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398511009034 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 398511009035 active site 398511009036 KMSKS motif; other site 398511009037 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 398511009038 tRNA binding surface [nucleotide binding]; other site 398511009039 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511009040 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 398511009041 putative substrate translocation pore; other site 398511009042 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 398511009043 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 398511009044 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 398511009045 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 398511009046 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 398511009047 active site clefts [active] 398511009048 zinc binding site [ion binding]; other site 398511009049 dimer interface [polypeptide binding]; other site 398511009050 short chain dehydrogenase; Provisional; Region: PRK06914 398511009051 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 398511009052 NADP binding site [chemical binding]; other site 398511009053 active site 398511009054 steroid binding site; other site 398511009055 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 398511009056 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398511009057 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398511009058 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 398511009059 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 398511009060 trimer interface [polypeptide binding]; other site 398511009061 putative metal binding site [ion binding]; other site 398511009062 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 398511009063 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 398511009064 active site 398511009065 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398511009066 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 398511009067 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 398511009068 S-adenosylmethionine synthetase; Validated; Region: PRK05250 398511009069 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 398511009070 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 398511009071 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 398511009072 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 398511009073 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 398511009074 active site 398511009075 substrate-binding site [chemical binding]; other site 398511009076 metal-binding site [ion binding] 398511009077 ATP binding site [chemical binding]; other site 398511009078 Uncharacterized conserved protein [Function unknown]; Region: COG0011 398511009079 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398511009080 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398511009081 NMT1-like family; Region: NMT1_2; pfam13379 398511009082 NMT1/THI5 like; Region: NMT1; pfam09084 398511009083 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398511009084 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398511009085 Walker A/P-loop; other site 398511009086 ATP binding site [chemical binding]; other site 398511009087 Q-loop/lid; other site 398511009088 ABC transporter signature motif; other site 398511009089 Walker B; other site 398511009090 D-loop; other site 398511009091 H-loop/switch region; other site 398511009092 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398511009093 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 398511009094 dimer interface [polypeptide binding]; other site 398511009095 conserved gate region; other site 398511009096 putative PBP binding loops; other site 398511009097 ABC-ATPase subunit interface; other site 398511009098 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 398511009099 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_8; cd04665 398511009100 nudix motif; other site 398511009101 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 398511009102 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511009103 putative substrate translocation pore; other site 398511009104 YwpF-like protein; Region: YwpF; pfam14183 398511009105 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 398511009106 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 398511009107 inhibitor-cofactor binding pocket; inhibition site 398511009108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511009109 catalytic residue [active] 398511009110 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 398511009111 AAA domain; Region: AAA_26; pfam13500 398511009112 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 398511009113 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 398511009114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511009115 homodimer interface [polypeptide binding]; other site 398511009116 catalytic residue [active] 398511009117 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398511009118 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 398511009119 dimerization interface [polypeptide binding]; other site 398511009120 ligand binding site [chemical binding]; other site 398511009121 NADP binding site [chemical binding]; other site 398511009122 catalytic site [active] 398511009123 Protein of unknown function (DUF3888); Region: DUF3888; pfam13027 398511009124 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 398511009125 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 398511009126 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 398511009127 Ca binding site [ion binding]; other site 398511009128 active site 398511009129 catalytic site [active] 398511009130 CsbD-like; Region: CsbD; pfam05532 398511009131 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 398511009132 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398511009133 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398511009134 ABC transporter; Region: ABC_tran_2; pfam12848 398511009135 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398511009136 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 398511009137 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 398511009138 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 398511009139 Substrate-binding site [chemical binding]; other site 398511009140 Substrate specificity [chemical binding]; other site 398511009141 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 398511009142 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 398511009143 Substrate-binding site [chemical binding]; other site 398511009144 Substrate specificity [chemical binding]; other site 398511009145 transglutaminase; Provisional; Region: tgl; PRK03187 398511009146 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 398511009147 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398511009148 Restriction endonuclease; Region: Mrr_cat; pfam04471 398511009149 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 398511009150 classical (c) SDRs; Region: SDR_c; cd05233 398511009151 NAD(P) binding site [chemical binding]; other site 398511009152 active site 398511009153 potential frameshift: common BLAST hit: gi|56964908|ref|YP_176639.1| S-adenosylmethionine:tRNA ribosyltransferase-isomerase, queuosine 398511009154 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 398511009155 active site 398511009156 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398511009157 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 398511009158 active site 398511009159 phosphorylation site [posttranslational modification] 398511009160 intermolecular recognition site; other site 398511009161 dimerization interface [polypeptide binding]; other site 398511009162 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 398511009163 DNA binding residues [nucleotide binding] 398511009164 dimerization interface [polypeptide binding]; other site 398511009165 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398511009166 GAF domain; Region: GAF; pfam01590 398511009167 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 398511009168 Histidine kinase; Region: HisKA_3; pfam07730 398511009169 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 398511009170 ATP binding site [chemical binding]; other site 398511009171 Mg2+ binding site [ion binding]; other site 398511009172 G-X-G motif; other site 398511009173 Restriction endonuclease; Region: Mrr_cat; pfam04471 398511009174 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511009175 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 398511009176 putative substrate translocation pore; other site 398511009177 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 398511009178 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398511009179 Walker A/P-loop; other site 398511009180 ATP binding site [chemical binding]; other site 398511009181 Q-loop/lid; other site 398511009182 ABC transporter signature motif; other site 398511009183 Walker B; other site 398511009184 D-loop; other site 398511009185 H-loop/switch region; other site 398511009186 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 398511009187 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 398511009188 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 398511009189 PhoU domain; Region: PhoU; pfam01895 398511009190 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 398511009191 PhoU domain; Region: PhoU; pfam01895 398511009192 PhoU domain; Region: PhoU; pfam01895 398511009193 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398511009194 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398511009195 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398511009196 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 398511009197 dimer interface [polypeptide binding]; other site 398511009198 conserved gate region; other site 398511009199 putative PBP binding loops; other site 398511009200 ABC-ATPase subunit interface; other site 398511009201 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 398511009202 dimer interface [polypeptide binding]; other site 398511009203 conserved gate region; other site 398511009204 putative PBP binding loops; other site 398511009205 ABC-ATPase subunit interface; other site 398511009206 YusW-like protein; Region: YusW; pfam14039 398511009207 YhfH-like protein; Region: YhfH; pfam14149 398511009208 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 398511009209 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 398511009210 dimanganese center [ion binding]; other site 398511009211 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398511009212 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398511009213 DNA binding site [nucleotide binding] 398511009214 domain linker motif; other site 398511009215 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 398511009216 putative dimerization interface [polypeptide binding]; other site 398511009217 putative ligand binding site [chemical binding]; other site 398511009218 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 398511009219 FOG: CBS domain [General function prediction only]; Region: COG0517 398511009220 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 398511009221 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 398511009222 active site 398511009223 catalytic residues [active] 398511009224 multiple promoter invertase; Provisional; Region: mpi; PRK13413 398511009225 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 398511009226 catalytic residues [active] 398511009227 catalytic nucleophile [active] 398511009228 Presynaptic Site I dimer interface [polypeptide binding]; other site 398511009229 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 398511009230 Synaptic Flat tetramer interface [polypeptide binding]; other site 398511009231 Synaptic Site I dimer interface [polypeptide binding]; other site 398511009232 DNA binding site [nucleotide binding] 398511009233 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 398511009234 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 398511009235 DNA-binding site [nucleotide binding]; DNA binding site 398511009236 RNA-binding motif; other site 398511009237 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 398511009238 non-specific DNA binding site [nucleotide binding]; other site 398511009239 salt bridge; other site 398511009240 sequence-specific DNA binding site [nucleotide binding]; other site 398511009241 Helix-turn-helix domain; Region: HTH_36; pfam13730 398511009242 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398511009243 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 398511009244 non-specific DNA binding site [nucleotide binding]; other site 398511009245 salt bridge; other site 398511009246 sequence-specific DNA binding site [nucleotide binding]; other site 398511009247 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 398511009248 sequence-specific DNA binding site [nucleotide binding]; other site 398511009249 salt bridge; other site 398511009250 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 398511009251 putative active site [active] 398511009252 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 398511009253 non-specific DNA interactions [nucleotide binding]; other site 398511009254 DNA binding site [nucleotide binding] 398511009255 sequence specific DNA binding site [nucleotide binding]; other site 398511009256 putative cAMP binding site [chemical binding]; other site 398511009257 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 398511009258 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 398511009259 active site 398511009260 DNA binding site [nucleotide binding] 398511009261 Int/Topo IB signature motif; other site 398511009262 Ion channel; Region: Ion_trans_2; pfam07885 398511009263 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 398511009264 TrkA-N domain; Region: TrkA_N; pfam02254 398511009265 YugN-like family; Region: YugN; pfam08868 398511009266 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 398511009267 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 398511009268 active site 398511009269 dimer interface [polypeptide binding]; other site 398511009270 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 398511009271 dimer interface [polypeptide binding]; other site 398511009272 active site 398511009273 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 398511009274 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 398511009275 dimer interface [polypeptide binding]; other site 398511009276 active site 398511009277 metal binding site [ion binding]; metal-binding site 398511009278 Uncharacterized conserved protein [Function unknown]; Region: COG2155 398511009279 general stress protein 13; Validated; Region: PRK08059 398511009280 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 398511009281 RNA binding site [nucleotide binding]; other site 398511009282 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 398511009283 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398511009284 ATP binding site [chemical binding]; other site 398511009285 putative Mg++ binding site [ion binding]; other site 398511009286 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 398511009287 nucleotide binding region [chemical binding]; other site 398511009288 ATP-binding site [chemical binding]; other site 398511009289 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 398511009290 substrate binding site [chemical binding]; other site 398511009291 multimerization interface [polypeptide binding]; other site 398511009292 ATP binding site [chemical binding]; other site 398511009293 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 398511009294 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 398511009295 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398511009296 hypothetical protein; Validated; Region: PRK07682 398511009297 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 398511009298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511009299 homodimer interface [polypeptide binding]; other site 398511009300 catalytic residue [active] 398511009301 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398511009302 AsnC family; Region: AsnC_trans_reg; pfam01037 398511009303 Isochorismatase family; Region: Isochorismatase; pfam00857 398511009304 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 398511009305 catalytic triad [active] 398511009306 conserved cis-peptide bond; other site 398511009307 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 398511009308 putative FMN binding site [chemical binding]; other site 398511009309 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 398511009310 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 398511009311 Ca binding site [ion binding]; other site 398511009312 active site 398511009313 catalytic site [active] 398511009314 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 398511009315 S-ribosylhomocysteinase; Provisional; Region: PRK02260 398511009316 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 398511009317 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 398511009318 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 398511009319 IHF dimer interface [polypeptide binding]; other site 398511009320 IHF - DNA interface [nucleotide binding]; other site 398511009321 RDD family; Region: RDD; pfam06271 398511009322 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 398511009323 Predicted permease [General function prediction only]; Region: COG2056 398511009324 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 398511009325 Predicted transcriptional regulators [Transcription]; Region: COG1378 398511009326 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 398511009327 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 398511009328 C-terminal domain interface [polypeptide binding]; other site 398511009329 sugar binding site [chemical binding]; other site 398511009330 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398511009331 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 398511009332 putative substrate translocation pore; other site 398511009333 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 398511009334 zinc binding site [ion binding]; other site 398511009335 Domain of unknown function (DUF897); Region: DUF897; pfam05982 398511009336 Uncharacterized conserved protein (DUF2294); Region: DUF2294; pfam10057 398511009337 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398511009338 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 398511009339 dimerization interface [polypeptide binding]; other site 398511009340 NAD binding site [chemical binding]; other site 398511009341 ligand binding site [chemical binding]; other site 398511009342 catalytic site [active] 398511009343 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 398511009344 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 398511009345 Chromate transporter; Region: Chromate_transp; pfam02417 398511009346 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398511009347 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 398511009348 DctM-like transporters; Region: DctM; pfam06808 398511009349 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 398511009350 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 398511009351 multifunctional aminopeptidase A; Provisional; Region: PRK00913 398511009352 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 398511009353 interface (dimer of trimers) [polypeptide binding]; other site 398511009354 Substrate-binding/catalytic site; other site 398511009355 Zn-binding sites [ion binding]; other site 398511009356 Divergent PAP2 family; Region: DUF212; pfam02681 398511009357 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 398511009358 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 398511009359 cobalamin binding residues [chemical binding]; other site 398511009360 putative BtuC binding residues; other site 398511009361 dimer interface [polypeptide binding]; other site 398511009362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 398511009363 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 398511009364 dimerization interface [polypeptide binding]; other site 398511009365 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398511009366 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398511009367 dimer interface [polypeptide binding]; other site 398511009368 putative CheW interface [polypeptide binding]; other site 398511009369 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 398511009370 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 398511009371 ligand binding site [chemical binding]; other site 398511009372 Putative membrane protein; Region: YuiB; pfam14068 398511009373 Predicted membrane protein [Function unknown]; Region: COG2323 398511009374 chaperone protein DnaJ; Provisional; Region: PRK14279 398511009375 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398511009376 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511009377 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398511009378 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 398511009379 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398511009380 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511009381 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 398511009382 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 398511009383 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 398511009384 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 398511009385 FeS/SAM binding site; other site 398511009386 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 398511009387 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 398511009388 NAD binding site [chemical binding]; other site 398511009389 dimer interface [polypeptide binding]; other site 398511009390 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398511009391 substrate binding site [chemical binding]; other site 398511009392 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 398511009393 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 398511009394 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 398511009395 hypothetical protein; Provisional; Region: PRK13669 398511009396 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398511009397 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511009398 Protein of unknown function (DUF1462); Region: DUF1462; pfam07315 398511009399 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 398511009400 classical (c) SDRs; Region: SDR_c; cd05233 398511009401 NAD(P) binding site [chemical binding]; other site 398511009402 active site 398511009403 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 398511009404 Transcriptional regulator protein (SplA); Region: SplA; pfam11132 398511009405 homoserine kinase; Provisional; Region: PRK01212 398511009406 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 398511009407 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 398511009408 threonine synthase; Reviewed; Region: PRK06721 398511009409 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 398511009410 homodimer interface [polypeptide binding]; other site 398511009411 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511009412 catalytic residue [active] 398511009413 homoserine dehydrogenase; Provisional; Region: PRK06349 398511009414 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 398511009415 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 398511009416 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 398511009417 spore coat protein YutH; Region: spore_yutH; TIGR02905 398511009418 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 398511009419 tetramer interfaces [polypeptide binding]; other site 398511009420 binuclear metal-binding site [ion binding]; other site 398511009421 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 398511009422 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 398511009423 active site 398511009424 motif I; other site 398511009425 motif II; other site 398511009426 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 398511009427 motif II; other site 398511009428 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 398511009429 Predicted transcriptional regulator [Transcription]; Region: COG2345 398511009430 putative DNA binding site [nucleotide binding]; other site 398511009431 putative Zn2+ binding site [ion binding]; other site 398511009432 Uncharacterized conserved protein [Function unknown]; Region: COG2445 398511009433 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 398511009434 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 398511009435 putative active site [active] 398511009436 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 398511009437 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 398511009438 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 398511009439 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08248 398511009440 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 398511009441 homodimer interface [polypeptide binding]; other site 398511009442 substrate-cofactor binding pocket; other site 398511009443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511009444 catalytic residue [active] 398511009445 lipoyl synthase; Provisional; Region: PRK05481 398511009446 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 398511009447 FeS/SAM binding site; other site 398511009448 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398511009449 Peptidase family M23; Region: Peptidase_M23; pfam01551 398511009450 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 398511009451 Na2 binding site [ion binding]; other site 398511009452 putative substrate binding site 1 [chemical binding]; other site 398511009453 Na binding site 1 [ion binding]; other site 398511009454 putative substrate binding site 2 [chemical binding]; other site 398511009455 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 398511009456 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 398511009457 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 398511009458 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 398511009459 folate binding site [chemical binding]; other site 398511009460 NADP+ binding site [chemical binding]; other site 398511009461 thymidylate synthase; Reviewed; Region: thyA; PRK01827 398511009462 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 398511009463 dimerization interface [polypeptide binding]; other site 398511009464 active site 398511009465 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398511009466 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398511009467 Zn2+ binding site [ion binding]; other site 398511009468 Mg2+ binding site [ion binding]; other site 398511009469 Uncharacterized conserved protein [Function unknown]; Region: COG3377 398511009470 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 398511009471 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 398511009472 active site 398511009473 metal binding site [ion binding]; metal-binding site 398511009474 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 398511009475 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398511009476 Uncharacterized conserved protein [Function unknown]; Region: COG1801 398511009477 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 398511009478 FeS assembly protein SufB; Region: sufB; TIGR01980 398511009479 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 398511009480 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 398511009481 trimerization site [polypeptide binding]; other site 398511009482 active site 398511009483 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 398511009484 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 398511009485 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398511009486 catalytic residue [active] 398511009487 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 398511009488 FeS assembly protein SufD; Region: sufD; TIGR01981 398511009489 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 398511009490 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 398511009491 Walker A/P-loop; other site 398511009492 ATP binding site [chemical binding]; other site 398511009493 Q-loop/lid; other site 398511009494 ABC transporter signature motif; other site 398511009495 Walker B; other site 398511009496 D-loop; other site 398511009497 H-loop/switch region; other site 398511009498 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 398511009499 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398511009500 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 398511009501 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 398511009502 dimer interface [polypeptide binding]; other site 398511009503 ABC-ATPase subunit interface; other site 398511009504 putative PBP binding loops; other site 398511009505 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 398511009506 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 398511009507 Walker A/P-loop; other site 398511009508 ATP binding site [chemical binding]; other site 398511009509 Q-loop/lid; other site 398511009510 ABC transporter signature motif; other site 398511009511 Walker B; other site 398511009512 D-loop; other site 398511009513 H-loop/switch region; other site 398511009514 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 398511009515 potential frameshift: common BLAST hit: gi|15616044|ref|NP_244349.1| multidrug-efflux transporter 398511009516 Protein of unknown function (DUF2553); Region: DUF2553; pfam10830 398511009517 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 398511009518 lipoyl attachment site [posttranslational modification]; other site 398511009519 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 398511009520 ArsC family; Region: ArsC; pfam03960 398511009521 putative ArsC-like catalytic residues; other site 398511009522 putative TRX-like catalytic residues [active] 398511009523 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398511009524 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398511009525 active site 398511009526 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 398511009527 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398511009528 dimer interface [polypeptide binding]; other site 398511009529 active site 398511009530 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 398511009531 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398511009532 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398511009533 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398511009534 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398511009535 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398511009536 substrate binding site [chemical binding]; other site 398511009537 oxyanion hole (OAH) forming residues; other site 398511009538 Coat F domain; Region: Coat_F; pfam07875 398511009539 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 398511009540 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 398511009541 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 398511009542 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 398511009543 active site 398511009544 phosphorylation site [posttranslational modification] 398511009545 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 398511009546 HTH domain; Region: HTH_11; pfam08279 398511009547 HTH domain; Region: HTH_11; pfam08279 398511009548 PRD domain; Region: PRD; pfam00874 398511009549 PRD domain; Region: PRD; pfam00874 398511009550 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 398511009551 active site 398511009552 P-loop; other site 398511009553 phosphorylation site [posttranslational modification] 398511009554 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 398511009555 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 398511009556 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 398511009557 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 398511009558 active site 398511009559 P-loop; other site 398511009560 phosphorylation site [posttranslational modification] 398511009561 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398511009562 DNA-binding site [nucleotide binding]; DNA binding site 398511009563 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398511009564 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398511009565 Walker A/P-loop; other site 398511009566 ATP binding site [chemical binding]; other site 398511009567 Q-loop/lid; other site 398511009568 ABC transporter signature motif; other site 398511009569 Walker B; other site 398511009570 D-loop; other site 398511009571 H-loop/switch region; other site 398511009572 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 398511009573 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398511009574 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398511009575 metal binding site [ion binding]; metal-binding site 398511009576 active site 398511009577 I-site; other site 398511009578 Small acid-soluble spore protein H family; Region: SspH; pfam08141 398511009579 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398511009580 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398511009581 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 398511009582 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398511009583 NAD binding site [chemical binding]; other site 398511009584 catalytic Zn binding site [ion binding]; other site 398511009585 structural Zn binding site [ion binding]; other site 398511009586 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 398511009587 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 398511009588 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 398511009589 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398511009590 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398511009591 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 398511009592 DXD motif; other site 398511009593 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 398511009594 dimerization interface [polypeptide binding]; other site 398511009595 LAGLIDADG endonuclease; Region: LAGLIDADG_1; pfam00961 398511009596 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 398511009597 SmpB-tmRNA interface; other site 398511009598 ribonuclease R; Region: RNase_R; TIGR02063 398511009599 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 398511009600 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 398511009601 RNB domain; Region: RNB; pfam00773 398511009602 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 398511009603 RNA binding site [nucleotide binding]; other site 398511009604 Esterase/lipase [General function prediction only]; Region: COG1647 398511009605 Esterase/lipase [General function prediction only]; Region: COG1647 398511009606 enolase; Provisional; Region: eno; PRK00077 398511009607 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 398511009608 dimer interface [polypeptide binding]; other site 398511009609 metal binding site [ion binding]; metal-binding site 398511009610 substrate binding pocket [chemical binding]; other site 398511009611 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 398511009612 phosphoglyceromutase; Provisional; Region: PRK05434 398511009613 triosephosphate isomerase; Provisional; Region: PRK14567 398511009614 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 398511009615 substrate binding site [chemical binding]; other site 398511009616 dimer interface [polypeptide binding]; other site 398511009617 catalytic triad [active] 398511009618 Phosphoglycerate kinase; Region: PGK; pfam00162 398511009619 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 398511009620 substrate binding site [chemical binding]; other site 398511009621 hinge regions; other site 398511009622 ADP binding site [chemical binding]; other site 398511009623 catalytic site [active] 398511009624 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 398511009625 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 398511009626 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 398511009627 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 398511009628 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 398511009629 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 398511009630 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 398511009631 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 398511009632 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 398511009633 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 398511009634 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 398511009635 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 398511009636 oligomer interface [polypeptide binding]; other site 398511009637 active site residues [active] 398511009638 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 398511009639 dimerization domain swap beta strand [polypeptide binding]; other site 398511009640 regulatory protein interface [polypeptide binding]; other site 398511009641 active site 398511009642 regulatory phosphorylation site [posttranslational modification]; other site 398511009643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 398511009644 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 398511009645 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 398511009646 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 398511009647 phosphate binding site [ion binding]; other site 398511009648 putative substrate binding pocket [chemical binding]; other site 398511009649 dimer interface [polypeptide binding]; other site 398511009650 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 398511009651 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 398511009652 putative active site [active] 398511009653 nucleotide binding site [chemical binding]; other site 398511009654 nudix motif; other site 398511009655 putative metal binding site [ion binding]; other site 398511009656 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 398511009657 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398511009658 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511009659 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 398511009660 binding surface 398511009661 TPR motif; other site 398511009662 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 398511009663 binding surface 398511009664 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398511009665 TPR motif; other site 398511009666 Predicted membrane protein [Function unknown]; Region: COG2259 398511009667 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 398511009668 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 398511009669 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 398511009670 metal binding site [ion binding]; metal-binding site 398511009671 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 398511009672 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 398511009673 substrate binding site [chemical binding]; other site 398511009674 glutamase interaction surface [polypeptide binding]; other site 398511009675 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 398511009676 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 398511009677 catalytic residues [active] 398511009678 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 398511009679 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 398511009680 putative active site [active] 398511009681 oxyanion strand; other site 398511009682 catalytic triad [active] 398511009683 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 398511009684 putative active site pocket [active] 398511009685 4-fold oligomerization interface [polypeptide binding]; other site 398511009686 metal binding residues [ion binding]; metal-binding site 398511009687 3-fold/trimer interface [polypeptide binding]; other site 398511009688 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 398511009689 histidinol dehydrogenase; Region: hisD; TIGR00069 398511009690 NAD binding site [chemical binding]; other site 398511009691 dimerization interface [polypeptide binding]; other site 398511009692 product binding site; other site 398511009693 substrate binding site [chemical binding]; other site 398511009694 zinc binding site [ion binding]; other site 398511009695 catalytic residues [active] 398511009696 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 398511009697 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 398511009698 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 398511009699 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 398511009700 dimer interface [polypeptide binding]; other site 398511009701 motif 1; other site 398511009702 active site 398511009703 motif 2; other site 398511009704 motif 3; other site 398511009705 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 398511009706 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 398511009707 trimer interface [polypeptide binding]; other site 398511009708 CoA binding site [chemical binding]; other site 398511009709 active site 398511009710 pyrophosphatase PpaX; Provisional; Region: PRK13288 398511009711 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 398511009712 motif II; other site 398511009713 Nucleoside recognition; Region: Gate; pfam07670 398511009714 Nucleoside recognition; Region: Gate; pfam07670 398511009715 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 398511009716 HPr kinase/phosphorylase; Provisional; Region: PRK05428 398511009717 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 398511009718 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 398511009719 Hpr binding site; other site 398511009720 active site 398511009721 homohexamer subunit interaction site [polypeptide binding]; other site 398511009722 Membrane protein of unknown function; Region: DUF360; cl00850 398511009723 PspC domain; Region: PspC; pfam04024 398511009724 Uncharacterized conserved protein [Function unknown]; Region: COG3595 398511009725 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 398511009726 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 398511009727 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 398511009728 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398511009729 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398511009730 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 398511009731 excinuclease ABC subunit B; Provisional; Region: PRK05298 398511009732 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 398511009733 ATP binding site [chemical binding]; other site 398511009734 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 398511009735 nucleotide binding region [chemical binding]; other site 398511009736 ATP-binding site [chemical binding]; other site 398511009737 Ultra-violet resistance protein B; Region: UvrB; pfam12344 398511009738 Uncharacterized protein conserved in bacteria (DUF2198); Region: DUF2198; cl11559 398511009739 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 398511009740 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 398511009741 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 398511009742 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 398511009743 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 398511009744 protein binding site [polypeptide binding]; other site 398511009745 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 398511009746 Catalytic dyad [active] 398511009747 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398511009748 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 398511009749 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 398511009750 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 398511009751 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 398511009752 [4Fe-4S] binding site [ion binding]; other site 398511009753 molybdopterin cofactor binding site; other site 398511009754 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 398511009755 molybdopterin cofactor binding site; other site 398511009756 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 398511009757 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398511009758 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511009759 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 398511009760 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398511009761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 398511009762 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398511009763 Peptidase family M23; Region: Peptidase_M23; pfam01551 398511009764 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 398511009765 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 398511009766 FtsX-like permease family; Region: FtsX; pfam02687 398511009767 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 398511009768 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511009769 Walker A/P-loop; other site 398511009770 ATP binding site [chemical binding]; other site 398511009771 Q-loop/lid; other site 398511009772 ABC transporter signature motif; other site 398511009773 Walker B; other site 398511009774 D-loop; other site 398511009775 H-loop/switch region; other site 398511009776 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398511009777 Uncharacterized conserved protein [Function unknown]; Region: COG1284 398511009778 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398511009779 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398511009780 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 398511009781 peptide chain release factor 2; Provisional; Region: PRK06746 398511009782 This domain is found in peptide chain release factors; Region: PCRF; smart00937 398511009783 RF-1 domain; Region: RF-1; pfam00472 398511009784 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 398511009785 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 398511009786 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 398511009787 nucleotide binding region [chemical binding]; other site 398511009788 ATP-binding site [chemical binding]; other site 398511009789 SEC-C motif; Region: SEC-C; pfam02810 398511009790 sensory histidine kinase DcuS; Provisional; Region: PRK11086 398511009791 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 398511009792 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 398511009793 ATP binding site [chemical binding]; other site 398511009794 Mg2+ binding site [ion binding]; other site 398511009795 G-X-G motif; other site 398511009796 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 398511009797 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 398511009798 active site 398511009799 phosphorylation site [posttranslational modification] 398511009800 intermolecular recognition site; other site 398511009801 dimerization interface [polypeptide binding]; other site 398511009802 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 398511009803 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 398511009804 transmembrane helices; other site 398511009805 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 398511009806 active site 398511009807 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 398511009808 30S subunit binding site; other site 398511009809 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 398511009810 DNA-binding site [nucleotide binding]; DNA binding site 398511009811 RNA-binding motif; other site 398511009812 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398511009813 flagellar protein FliS; Validated; Region: fliS; PRK05685 398511009814 FlaG protein; Region: FlaG; cl00591 398511009815 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 398511009816 [2Fe-2S] cluster binding site [ion binding]; other site 398511009817 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 398511009818 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511009819 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 398511009820 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 398511009821 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398511009822 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 398511009823 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 398511009824 active site 398511009825 SAM binding site [chemical binding]; other site 398511009826 homodimer interface [polypeptide binding]; other site 398511009827 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 398511009828 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 398511009829 active site 398511009830 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 398511009831 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 398511009832 flagellin; Provisional; Region: PRK12802 398511009833 flagellin; Reviewed; Region: PRK08869 398511009834 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398511009835 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 398511009836 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398511009837 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 398511009838 DNA binding residues [nucleotide binding] 398511009839 dimerization interface [polypeptide binding]; other site 398511009840 carbon storage regulator; Provisional; Region: PRK01712 398511009841 flagellar assembly protein FliW; Provisional; Region: PRK13285 398511009842 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398511009843 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 398511009844 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 398511009845 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398511009846 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398511009847 FlgN protein; Region: FlgN; pfam05130 398511009848 Negative regulator of flagellin synthesis (anti-sigma28 factor) [Transcription / Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgM; COG2747 398511009849 flagellar operon protein TIGR03826; Region: YvyF 398511009850 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 398511009851 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398511009852 active site 398511009853 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 398511009854 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 398511009855 ATP binding site [chemical binding]; other site 398511009856 putative Mg++ binding site [ion binding]; other site 398511009857 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 398511009858 nucleotide binding region [chemical binding]; other site 398511009859 ATP-binding site [chemical binding]; other site 398511009860 EDD domain protein, DegV family; Region: DegV; TIGR00762 398511009861 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 398511009862 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398511009863 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 398511009864 active site 398511009865 phosphorylation site [posttranslational modification] 398511009866 intermolecular recognition site; other site 398511009867 dimerization interface [polypeptide binding]; other site 398511009868 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 398511009869 DNA binding residues [nucleotide binding] 398511009870 dimerization interface [polypeptide binding]; other site 398511009871 Sensor protein DegS; Region: DegS; pfam05384 398511009872 Histidine kinase; Region: HisKA_3; pfam07730 398511009873 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 398511009874 ATP binding site [chemical binding]; other site 398511009875 Mg2+ binding site [ion binding]; other site 398511009876 G-X-G motif; other site 398511009877 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 398511009878 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 398511009879 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 398511009880 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 398511009881 putative substrate binding pocket [chemical binding]; other site 398511009882 AC domain interface; other site 398511009883 catalytic triad [active] 398511009884 AB domain interface; other site 398511009885 interchain disulfide; other site 398511009886 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398511009887 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 398511009888 DNA binding residues [nucleotide binding] 398511009889 AsnC family; Region: AsnC_trans_reg; pfam01037 398511009890 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 398511009891 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 398511009892 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 398511009893 dimer interface [polypeptide binding]; other site 398511009894 conserved gate region; other site 398511009895 putative PBP binding loops; other site 398511009896 ABC-ATPase subunit interface; other site 398511009897 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398511009898 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 398511009899 dimer interface [polypeptide binding]; other site 398511009900 conserved gate region; other site 398511009901 putative PBP binding loops; other site 398511009902 ABC-ATPase subunit interface; other site 398511009903 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398511009904 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 398511009905 peptide binding site [polypeptide binding]; other site 398511009906 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 398511009907 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398511009908 Walker A/P-loop; other site 398511009909 ATP binding site [chemical binding]; other site 398511009910 Q-loop/lid; other site 398511009911 ABC transporter signature motif; other site 398511009912 Walker B; other site 398511009913 D-loop; other site 398511009914 H-loop/switch region; other site 398511009915 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 398511009916 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 398511009917 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398511009918 Walker A/P-loop; other site 398511009919 ATP binding site [chemical binding]; other site 398511009920 Q-loop/lid; other site 398511009921 ABC transporter signature motif; other site 398511009922 Walker B; other site 398511009923 D-loop; other site 398511009924 H-loop/switch region; other site 398511009925 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 398511009926 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 398511009927 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 398511009928 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 398511009929 dimer interface [polypeptide binding]; other site 398511009930 conserved gate region; other site 398511009931 putative PBP binding loops; other site 398511009932 ABC-ATPase subunit interface; other site 398511009933 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398511009934 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 398511009935 dimer interface [polypeptide binding]; other site 398511009936 conserved gate region; other site 398511009937 putative PBP binding loops; other site 398511009938 ABC-ATPase subunit interface; other site 398511009939 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398511009940 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 398511009941 peptide binding site [polypeptide binding]; other site 398511009942 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 398511009943 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398511009944 Walker A/P-loop; other site 398511009945 ATP binding site [chemical binding]; other site 398511009946 Q-loop/lid; other site 398511009947 ABC transporter signature motif; other site 398511009948 Walker B; other site 398511009949 D-loop; other site 398511009950 H-loop/switch region; other site 398511009951 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 398511009952 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 398511009953 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398511009954 Walker A/P-loop; other site 398511009955 ATP binding site [chemical binding]; other site 398511009956 Q-loop/lid; other site 398511009957 ABC transporter signature motif; other site 398511009958 Walker B; other site 398511009959 D-loop; other site 398511009960 H-loop/switch region; other site 398511009961 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 398511009962 Transcriptional regulator [Transcription]; Region: LytR; COG1316 398511009963 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 398511009964 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 398511009965 Mg++ binding site [ion binding]; other site 398511009966 putative catalytic motif [active] 398511009967 substrate binding site [chemical binding]; other site 398511009968 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 398511009969 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 398511009970 stage V sporulation protein B; Region: spore_V_B; TIGR02900 398511009971 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 398511009972 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 398511009973 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 398511009974 preprotein translocase subunit SecA; Reviewed; Region: PRK09200 398511009975 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 398511009976 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 398511009977 nucleotide binding region [chemical binding]; other site 398511009978 ATP-binding site [chemical binding]; other site 398511009979 Bacterial SH3 domain; Region: SH3_3; pfam08239 398511009980 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 398511009981 Bacterial SH3 domain; Region: SH3_3; pfam08239 398511009982 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 398511009983 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 398511009984 active site 398511009985 metal binding site [ion binding]; metal-binding site 398511009986 S-layer homology domain; Region: SLH; pfam00395 398511009987 S-layer homology domain; Region: SLH; pfam00395 398511009988 S-layer homology domain; Region: SLH; pfam00395 398511009989 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 398511009990 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 398511009991 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 398511009992 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 398511009993 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 398511009994 S-layer homology domain; Region: SLH; pfam00395 398511009995 S-layer homology domain; Region: SLH; pfam00395 398511009996 S-layer homology domain; Region: SLH; pfam00395 398511009997 S-layer homology domain; Region: SLH; pfam00395 398511009998 S-layer homology domain; Region: SLH; pfam00395 398511009999 S-layer homology domain; Region: SLH; pfam00395 398511010000 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 398511010001 active site 398511010002 catalytic triad [active] 398511010003 S-layer homology domain; Region: SLH; pfam00395 398511010004 S-layer homology domain; Region: SLH; pfam00395 398511010005 S-layer homology domain; Region: SLH; pfam00395 398511010006 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 398511010007 agmatinase; Region: agmatinase; TIGR01230 398511010008 Agmatinase-like family; Region: Agmatinase-like; cd09990 398511010009 active site 398511010010 oligomer interface [polypeptide binding]; other site 398511010011 Mn binding site [ion binding]; other site 398511010012 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 398511010013 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 398511010014 Cache domain; Region: Cache_1; pfam02743 398511010015 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 398511010016 dimerization interface [polypeptide binding]; other site 398511010017 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398511010018 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398511010019 dimer interface [polypeptide binding]; other site 398511010020 putative CheW interface [polypeptide binding]; other site 398511010021 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398511010022 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 398511010023 FtsX-like permease family; Region: FtsX; pfam02687 398511010024 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398511010025 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398511010026 Walker A/P-loop; other site 398511010027 ATP binding site [chemical binding]; other site 398511010028 Q-loop/lid; other site 398511010029 ABC transporter signature motif; other site 398511010030 Walker B; other site 398511010031 D-loop; other site 398511010032 H-loop/switch region; other site 398511010033 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 398511010034 HlyD family secretion protein; Region: HlyD_3; pfam13437 398511010035 Yip1 domain; Region: Yip1; pfam04893 398511010036 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 398511010037 active site 398511010038 catalytic residues [active] 398511010039 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 398511010040 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398511010041 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 398511010042 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 398511010043 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 398511010044 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 398511010045 active site 398511010046 Zn binding site [ion binding]; other site 398511010047 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 398511010048 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 398511010049 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 398511010050 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 398511010051 Acyltransferase family; Region: Acyl_transf_3; pfam01757 398511010052 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 398511010053 S-layer homology domain; Region: SLH; pfam00395 398511010054 S-layer homology domain; Region: SLH; pfam00395 398511010055 S-layer homology domain; Region: SLH; pfam00395 398511010056 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 398511010057 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 398511010058 active site 398511010059 metal binding site [ion binding]; metal-binding site 398511010060 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 398511010061 S-layer homology domain; Region: SLH; pfam00395 398511010062 S-layer homology domain; Region: SLH; pfam00395 398511010063 S-layer homology domain; Region: SLH; pfam00395 398511010064 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 398511010065 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 398511010066 active site 398511010067 metal binding site [ion binding]; metal-binding site 398511010068 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 398511010069 S-layer homology domain; Region: SLH; pfam00395 398511010070 S-layer homology domain; Region: SLH; pfam00395 398511010071 S-layer homology domain; Region: SLH; pfam00395 398511010072 S-layer homology domain; Region: SLH; pfam00395 398511010073 S-layer homology domain; Region: SLH; pfam00395 398511010074 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 398511010075 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398511010076 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 398511010077 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398511010078 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398511010079 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398511010080 NlpC/P60 family; Region: NLPC_P60; pfam00877 398511010081 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 398511010082 Beta-lactamase; Region: Beta-lactamase; pfam00144 398511010083 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398511010084 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 398511010085 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 398511010086 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 398511010087 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 398511010088 A nuclease of the HNH/ENDO VII superfamily with conserved LHH; Region: LHH; pfam14411 398511010089 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 398511010090 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 398511010091 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 398511010092 Divergent AAA domain; Region: AAA_4; pfam04326 398511010093 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 398511010094 Cna protein B-type domain; Region: Cna_B_2; pfam13715 398511010095 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 398511010096 S-layer homology domain; Region: SLH; pfam00395 398511010097 S-layer homology domain; Region: SLH; pfam00395 398511010098 S-layer homology domain; Region: SLH; pfam00395 398511010099 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398511010100 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398511010101 HTH-like domain; Region: HTH_21; pfam13276 398511010102 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 398511010103 Integrase core domain; Region: rve; pfam00665 398511010104 Integrase core domain; Region: rve_3; pfam13683 398511010105 S-layer homology domain; Region: SLH; pfam00395 398511010106 S-layer homology domain; Region: SLH; pfam00395 398511010107 S-layer homology domain; Region: SLH; pfam00395 398511010108 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398511010109 NlpC/P60 family; Region: NLPC_P60; pfam00877 398511010110 S-layer homology domain; Region: SLH; pfam00395 398511010111 S-layer homology domain; Region: SLH; pfam00395 398511010112 S-layer homology domain; Region: SLH; pfam00395 398511010113 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 398511010114 active site 398511010115 catalytic residues [active] 398511010116 Immunoglobulin domain; Region: Ig_2; pfam13895 398511010117 S-layer homology domain; Region: SLH; pfam00395 398511010118 S-layer homology domain; Region: SLH; pfam00395 398511010119 S-layer homology domain; Region: SLH; pfam00395 398511010120 TPR repeat; Region: TPR_11; pfam13414 398511010121 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 398511010122 TPR motif; other site 398511010123 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 398511010124 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 398511010125 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 398511010126 putative active site [active] 398511010127 putative metal binding site [ion binding]; other site 398511010128 S-layer homology domain; Region: SLH; pfam00395 398511010129 S-layer homology domain; Region: SLH; pfam00395 398511010130 S-layer homology domain; Region: SLH; pfam00395 398511010131 Bacterial SH3 domain; Region: SH3_3; pfam08239 398511010132 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 398511010133 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 398511010134 active site 398511010135 metal binding site [ion binding]; metal-binding site 398511010136 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 398511010137 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398511010138 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398511010139 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398511010140 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 398511010141 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398511010142 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398511010143 NlpC/P60 family; Region: NLPC_P60; pfam00877 398511010144 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 398511010145 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 398511010146 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 398511010147 Chain length determinant protein; Region: Wzz; cl15801 398511010148 S-layer homology domain; Region: SLH; pfam00395 398511010149 S-layer homology domain; Region: SLH; pfam00395 398511010150 S-layer homology domain; Region: SLH; pfam00395 398511010151 VanZ like family; Region: VanZ; cl01971 398511010152 RNA polymerase factor sigma-70; Validated; Region: PRK06759 398511010153 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398511010154 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 398511010155 metal-binding site [ion binding] 398511010156 Fic/DOC family; Region: Fic; pfam02661 398511010157 Fic family protein [Function unknown]; Region: COG3177 398511010158 RNA polymerase III subunit RPC82 helix-turn-helix domain; Region: HTH_9; pfam08221 398511010159 Nuclease-related domain; Region: NERD; pfam08378 398511010160 Restriction endonuclease; Region: Mrr_cat; pfam04471 398511010161 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 398511010162 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 398511010163 intersubunit interface [polypeptide binding]; other site 398511010164 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 398511010165 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 398511010166 active site 398511010167 dimer interface [polypeptide binding]; other site 398511010168 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 398511010169 Ligand Binding Site [chemical binding]; other site 398511010170 Molecular Tunnel; other site 398511010171 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511010172 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 398511010173 active site 398511010174 phosphorylation site [posttranslational modification] 398511010175 intermolecular recognition site; other site 398511010176 dimerization interface [polypeptide binding]; other site 398511010177 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 398511010178 DNA binding site [nucleotide binding] 398511010179 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 398511010180 dimerization interface [polypeptide binding]; other site 398511010181 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 398511010182 dimer interface [polypeptide binding]; other site 398511010183 phosphorylation site [posttranslational modification] 398511010184 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 398511010185 ATP binding site [chemical binding]; other site 398511010186 Mg2+ binding site [ion binding]; other site 398511010187 G-X-G motif; other site 398511010188 short chain dehydrogenase; Provisional; Region: PRK06701 398511010189 potential frameshift: common BLAST hit: gi|154684910|ref|YP_001420071.1| short chain dehydrogenase 398511010190 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 398511010191 Protein of unknown function (DUF3221); Region: DUF3221; pfam11518 398511010192 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 398511010193 Fic family protein [Function unknown]; Region: COG3177 398511010194 Fic/DOC family; Region: Fic; pfam02661 398511010195 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 398511010196 amino acid transporter; Region: 2A0306; TIGR00909 398511010197 PAS domain; Region: PAS_9; pfam13426 398511010198 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398511010199 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 398511010200 Walker A motif; other site 398511010201 ATP binding site [chemical binding]; other site 398511010202 Walker B motif; other site 398511010203 arginine finger; other site 398511010204 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 398511010205 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 398511010206 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 398511010207 silicon transporter; Region: sit; TIGR00811 398511010208 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 398511010209 DctM-like transporters; Region: DctM; pfam06808 398511010210 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 398511010211 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 398511010212 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398511010213 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 398511010214 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398511010215 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 398511010216 substrate binding site [chemical binding]; other site 398511010217 dimer interface [polypeptide binding]; other site 398511010218 ATP binding site [chemical binding]; other site 398511010219 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398511010220 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398511010221 DNA binding site [nucleotide binding] 398511010222 domain linker motif; other site 398511010223 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 398511010224 dimerization interface [polypeptide binding]; other site 398511010225 ligand binding site [chemical binding]; other site 398511010226 sodium binding site [ion binding]; other site 398511010227 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 398511010228 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 398511010229 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 398511010230 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 398511010231 non-specific DNA binding site [nucleotide binding]; other site 398511010232 salt bridge; other site 398511010233 sequence-specific DNA binding site [nucleotide binding]; other site 398511010234 LXG domain of WXG superfamily; Region: LXG; pfam04740 398511010235 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 398511010236 non-specific DNA binding site [nucleotide binding]; other site 398511010237 salt bridge; other site 398511010238 sequence-specific DNA binding site [nucleotide binding]; other site 398511010239 Transposase IS200 like; Region: Y1_Tnp; pfam01797 398511010240 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 398511010241 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 398511010242 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 398511010243 Protein of unknown function DUF91; Region: DUF91; cl00709 398511010244 Recombinase; Region: Recombinase; pfam07508 398511010245 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 398511010246 LXG domain of WXG superfamily; Region: LXG; pfam04740 398511010247 A pre-toxin domain with the TG motif; Region: PT-TG; pfam14449 398511010248 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; pfam13930 398511010249 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 398511010250 non-specific DNA binding site [nucleotide binding]; other site 398511010251 salt bridge; other site 398511010252 sequence-specific DNA binding site [nucleotide binding]; other site 398511010253 Transposase IS200 like; Region: Y1_Tnp; cl00848 398511010254 potential frameshift: common BLAST hit: gi|239828383|ref|YP_002951007.1| Mg chelatase, subunit ChlI 398511010255 Amidase; Region: Amidase; cl11426 398511010256 Integrase core domain; Region: rve_3; cl15866 398511010257 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 398511010258 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 398511010259 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 398511010260 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 398511010261 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 398511010262 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 398511010263 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 398511010264 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 398511010265 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 398511010266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398511010267 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398511010268 NAD(P) binding site [chemical binding]; other site 398511010269 active site 398511010270 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 398511010271 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398511010272 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 398511010273 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 398511010274 O-Antigen ligase; Region: Wzy_C; pfam04932 398511010275 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 398511010276 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 398511010277 colanic acid exporter; Provisional; Region: PRK10459 398511010278 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 398511010279 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 398511010280 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398511010281 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 398511010282 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 398511010283 active site 398511010284 homodimer interface [polypeptide binding]; other site 398511010285 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 398511010286 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 398511010287 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 398511010288 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398511010289 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 398511010290 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 398511010291 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 398511010292 putative trimer interface [polypeptide binding]; other site 398511010293 putative CoA binding site [chemical binding]; other site 398511010294 Bacterial sugar transferase; Region: Bac_transf; pfam02397 398511010295 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 398511010296 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 398511010297 inhibitor-cofactor binding pocket; inhibition site 398511010298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511010299 catalytic residue [active] 398511010300 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 398511010301 four helix bundle protein; Region: TIGR02436 398511010302 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 398511010303 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 398511010304 active site 398511010305 tetramer interface; other site 398511010306 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 398511010307 four helix bundle protein; Region: TIGR02436 398511010308 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 398511010309 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 398511010310 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 398511010311 NAD(P) binding site [chemical binding]; other site 398511010312 homodimer interface [polypeptide binding]; other site 398511010313 substrate binding site [chemical binding]; other site 398511010314 active site 398511010315 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 398511010316 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 398511010317 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 398511010318 active site 398511010319 oxyanion hole [active] 398511010320 catalytic triad [active] 398511010321 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 398511010322 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398511010323 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398511010324 NlpC/P60 family; Region: NLPC_P60; cl17555 398511010325 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398511010326 NlpC/P60 family; Region: NLPC_P60; pfam00877 398511010327 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398511010328 NlpC/P60 family; Region: NLPC_P60; pfam00877 398511010329 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 398511010330 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 398511010331 putative active site [active] 398511010332 putative metal binding site [ion binding]; other site 398511010333 Capsule biosynthesis CapC; Region: Caps_synth_CapC; pfam14102 398511010334 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 398511010335 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 398511010336 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 398511010337 active site 398511010338 homodimer interface [polypeptide binding]; other site 398511010339 catalytic site [active] 398511010340 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 398511010341 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398511010342 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 398511010343 ligand binding site [chemical binding]; other site 398511010344 flexible hinge region; other site 398511010345 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 398511010346 putative switch regulator; other site 398511010347 non-specific DNA interactions [nucleotide binding]; other site 398511010348 DNA binding site [nucleotide binding] 398511010349 sequence specific DNA binding site [nucleotide binding]; other site 398511010350 putative cAMP binding site [chemical binding]; other site 398511010351 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 398511010352 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 398511010353 heme-binding site [chemical binding]; other site 398511010354 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 398511010355 FAD binding pocket [chemical binding]; other site 398511010356 FAD binding motif [chemical binding]; other site 398511010357 phosphate binding motif [ion binding]; other site 398511010358 beta-alpha-beta structure motif; other site 398511010359 NAD binding pocket [chemical binding]; other site 398511010360 Heme binding pocket [chemical binding]; other site 398511010361 Nuclease-related domain; Region: NERD; pfam08378 398511010362 KDPG and KHG aldolase; Region: Aldolase; cl17259 398511010363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398511010364 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 398511010365 putative NAD(P) binding site [chemical binding]; other site 398511010366 catalytic Zn binding site [ion binding]; other site 398511010367 structural Zn binding site [ion binding]; other site 398511010368 DHHC palmitoyltransferase; Region: zf-DHHC; pfam01529 398511010369 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511010370 Walker A/P-loop; other site 398511010371 ATP binding site [chemical binding]; other site 398511010372 Q-loop/lid; other site 398511010373 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511010374 ABC transporter signature motif; other site 398511010375 Walker B; other site 398511010376 D-loop; other site 398511010377 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398511010378 H-loop/switch region; other site 398511010379 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 398511010380 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 398511010381 Nuclease-related domain; Region: NERD; pfam08378 398511010382 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 398511010383 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 398511010384 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398511010385 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 398511010386 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398511010387 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 398511010388 rod shape-determining protein Mbl; Provisional; Region: PRK13928 398511010389 MreB and similar proteins; Region: MreB_like; cd10225 398511010390 nucleotide binding site [chemical binding]; other site 398511010391 Mg binding site [ion binding]; other site 398511010392 putative protofilament interaction site [polypeptide binding]; other site 398511010393 RodZ interaction site [polypeptide binding]; other site 398511010394 Stage III sporulation protein D; Region: SpoIIID; pfam12116 398511010395 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 398511010396 active site 398511010397 catalytic site [active] 398511010398 substrate binding site [chemical binding]; other site 398511010399 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 398511010400 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 398511010401 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 398511010402 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 398511010403 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 398511010404 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398511010405 metal binding triad; other site 398511010406 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398511010407 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 398511010408 Na binding site [ion binding]; other site 398511010409 Predicted membrane protein [Function unknown]; Region: COG4327 398511010410 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398511010411 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398511010412 Peptidase family M23; Region: Peptidase_M23; pfam01551 398511010413 stage II sporulation protein D; Region: spore_II_D; TIGR02870 398511010414 Stage II sporulation protein; Region: SpoIID; pfam08486 398511010415 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 398511010416 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 398511010417 hinge; other site 398511010418 active site 398511010419 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 398511010420 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 398511010421 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 398511010422 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 398511010423 gamma subunit interface [polypeptide binding]; other site 398511010424 epsilon subunit interface [polypeptide binding]; other site 398511010425 LBP interface [polypeptide binding]; other site 398511010426 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 398511010427 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 398511010428 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 398511010429 alpha subunit interaction interface [polypeptide binding]; other site 398511010430 Walker A motif; other site 398511010431 ATP binding site [chemical binding]; other site 398511010432 Walker B motif; other site 398511010433 inhibitor binding site; inhibition site 398511010434 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 398511010435 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 398511010436 core domain interface [polypeptide binding]; other site 398511010437 delta subunit interface [polypeptide binding]; other site 398511010438 epsilon subunit interface [polypeptide binding]; other site 398511010439 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 398511010440 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 398511010441 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 398511010442 beta subunit interaction interface [polypeptide binding]; other site 398511010443 Walker A motif; other site 398511010444 ATP binding site [chemical binding]; other site 398511010445 Walker B motif; other site 398511010446 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 398511010447 ATP synthase, F1 delta subunit; Region: ATP_synt_delta; TIGR01145 398511010448 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 398511010449 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 398511010450 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 398511010451 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 398511010452 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 398511010453 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 398511010454 ATP synthase I chain; Region: ATP_synt_I; pfam03899 398511010455 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 398511010456 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 398511010457 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 398511010458 putative active site [active] 398511010459 catalytic triad [active] 398511010460 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 398511010461 PA/protease domain interface [polypeptide binding]; other site 398511010462 putative integrin binding motif; other site 398511010463 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 398511010464 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 398511010465 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 398511010466 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 398511010467 active site 398511010468 homodimer interface [polypeptide binding]; other site 398511010469 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398511010470 active site 398511010471 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 398511010472 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 398511010473 dimer interface [polypeptide binding]; other site 398511010474 active site 398511010475 glycine-pyridoxal phosphate binding site [chemical binding]; other site 398511010476 folate binding site [chemical binding]; other site 398511010477 hypothetical protein; Provisional; Region: PRK13690 398511010478 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 398511010479 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 398511010480 dimerization interface [polypeptide binding]; other site 398511010481 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398511010482 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398511010483 dimer interface [polypeptide binding]; other site 398511010484 putative CheW interface [polypeptide binding]; other site 398511010485 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398511010486 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 398511010487 active site 398511010488 Domain of unknown function DUF; Region: DUF204; pfam02659 398511010489 Domain of unknown function DUF; Region: DUF204; pfam02659 398511010490 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 398511010491 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 398511010492 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398511010493 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 398511010494 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 398511010495 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 398511010496 S-adenosylmethionine binding site [chemical binding]; other site 398511010497 peptide chain release factor 1; Validated; Region: prfA; PRK00591 398511010498 This domain is found in peptide chain release factors; Region: PCRF; smart00937 398511010499 RF-1 domain; Region: RF-1; pfam00472 398511010500 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 398511010501 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398511010502 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511010503 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398511010504 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 398511010505 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398511010506 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398511010507 dimer interface [polypeptide binding]; other site 398511010508 putative CheW interface [polypeptide binding]; other site 398511010509 thymidine kinase; Provisional; Region: PRK04296 398511010510 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 398511010511 transcription termination factor Rho; Provisional; Region: rho; PRK09376 398511010512 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 398511010513 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 398511010514 RNA binding site [nucleotide binding]; other site 398511010515 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 398511010516 multimer interface [polypeptide binding]; other site 398511010517 Walker A motif; other site 398511010518 ATP binding site [chemical binding]; other site 398511010519 Walker B motif; other site 398511010520 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 398511010521 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 398511010522 putative active site [active] 398511010523 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 398511010524 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 398511010525 hinge; other site 398511010526 active site 398511010527 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 398511010528 active site 398511010529 intersubunit interactions; other site 398511010530 catalytic residue [active] 398511010531 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 398511010532 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 398511010533 intersubunit interface [polypeptide binding]; other site 398511010534 active site 398511010535 zinc binding site [ion binding]; other site 398511010536 Na+ binding site [ion binding]; other site 398511010537 Response regulator receiver domain; Region: Response_reg; pfam00072 398511010538 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 398511010539 active site 398511010540 phosphorylation site [posttranslational modification] 398511010541 intermolecular recognition site; other site 398511010542 dimerization interface [polypeptide binding]; other site 398511010543 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 398511010544 CTP synthetase; Validated; Region: pyrG; PRK05380 398511010545 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 398511010546 Catalytic site [active] 398511010547 active site 398511010548 UTP binding site [chemical binding]; other site 398511010549 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 398511010550 active site 398511010551 putative oxyanion hole; other site 398511010552 catalytic triad [active] 398511010553 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 398511010554 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 398511010555 B12 binding site [chemical binding]; other site 398511010556 cobalt ligand [ion binding]; other site 398511010557 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 398511010558 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 398511010559 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, unknown subfamily 1; composed of uncharacterized bacterial proteins containing a C-terminal MCM domain. MCM catalyzes the isomerization of methylmalonyl-CoA to succinyl-CoA. The...; Region: MM_CoA_mutase_1; cd03678 398511010560 putative active site [active] 398511010561 putative substrate binding site [chemical binding]; other site 398511010562 putative coenzyme B12 binding site [chemical binding]; other site 398511010563 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398511010564 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398511010565 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398511010566 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 398511010567 FAD binding site [chemical binding]; other site 398511010568 homotetramer interface [polypeptide binding]; other site 398511010569 substrate binding pocket [chemical binding]; other site 398511010570 catalytic base [active] 398511010571 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398511010572 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 398511010573 FAD binding site [chemical binding]; other site 398511010574 homotetramer interface [polypeptide binding]; other site 398511010575 substrate binding pocket [chemical binding]; other site 398511010576 catalytic base [active] 398511010577 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 398511010578 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398511010579 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398511010580 acetyl-CoA acetyltransferase; Provisional; Region: PRK08235 398511010581 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398511010582 dimer interface [polypeptide binding]; other site 398511010583 active site 398511010584 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 398511010585 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398511010586 4Fe-4S binding domain; Region: Fer4; cl02805 398511010587 Cysteine-rich domain; Region: CCG; pfam02754 398511010588 Cysteine-rich domain; Region: CCG; pfam02754 398511010589 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 398511010590 PLD-like domain; Region: PLDc_2; pfam13091 398511010591 putative active site [active] 398511010592 catalytic site [active] 398511010593 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 398511010594 PLD-like domain; Region: PLDc_2; pfam13091 398511010595 putative active site [active] 398511010596 catalytic site [active] 398511010597 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 398511010598 TrkA-N domain; Region: TrkA_N; pfam02254 398511010599 TrkA-C domain; Region: TrkA_C; pfam02080 398511010600 Predicted membrane protein [Function unknown]; Region: COG2323 398511010601 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398511010602 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 398511010603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 398511010604 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 398511010605 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 398511010606 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 398511010607 active site 398511010608 HIGH motif; other site 398511010609 KMSK motif region; other site 398511010610 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 398511010611 tRNA binding surface [nucleotide binding]; other site 398511010612 anticodon binding site; other site 398511010613 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 398511010614 agmatinase; Region: agmatinase; TIGR01230 398511010615 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 398511010616 putative active site [active] 398511010617 Mn binding site [ion binding]; other site 398511010618 spermidine synthase; Provisional; Region: PRK00811 398511010619 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 398511010620 Transglycosylase; Region: Transgly; pfam00912 398511010621 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 398511010622 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 398511010623 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 398511010624 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 398511010625 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398511010626 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 398511010627 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 398511010628 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 398511010629 NAD(P) binding site [chemical binding]; other site 398511010630 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398511010631 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 398511010632 Walker A motif; other site 398511010633 ATP binding site [chemical binding]; other site 398511010634 Walker B motif; other site 398511010635 arginine finger; other site 398511010636 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398511010637 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 398511010638 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 398511010639 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511010640 Coenzyme A binding pocket [chemical binding]; other site 398511010641 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398511010642 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511010643 Coenzyme A binding pocket [chemical binding]; other site 398511010644 YwhD family; Region: YwhD; pfam08741 398511010645 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 398511010646 active site 1 [active] 398511010647 dimer interface [polypeptide binding]; other site 398511010648 hexamer interface [polypeptide binding]; other site 398511010649 active site 2 [active] 398511010650 Uncharacterized conserved protein [Function unknown]; Region: COG3465 398511010651 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 398511010652 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398511010653 Zn2+ binding site [ion binding]; other site 398511010654 Mg2+ binding site [ion binding]; other site 398511010655 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398511010656 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398511010657 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 398511010658 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 398511010659 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 398511010660 potential catalytic triad [active] 398511010661 conserved cys residue [active] 398511010662 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 398511010663 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398511010664 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398511010665 substrate binding site [chemical binding]; other site 398511010666 oxyanion hole (OAH) forming residues; other site 398511010667 trimer interface [polypeptide binding]; other site 398511010668 putative heme peroxidase; Provisional; Region: PRK12276 398511010669 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 398511010670 PAS domain; Region: PAS_9; pfam13426 398511010671 putative active site [active] 398511010672 heme pocket [chemical binding]; other site 398511010673 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398511010674 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398511010675 metal binding site [ion binding]; metal-binding site 398511010676 active site 398511010677 I-site; other site 398511010678 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 398511010679 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398511010680 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 398511010681 dimerization interface [polypeptide binding]; other site 398511010682 putative DNA binding site [nucleotide binding]; other site 398511010683 putative Zn2+ binding site [ion binding]; other site 398511010684 AsnC family; Region: AsnC_trans_reg; pfam01037 398511010685 Uncharacterized conserved protein [Function unknown]; Region: COG1284 398511010686 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 398511010687 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 398511010688 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; pfam09671 398511010689 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 398511010690 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511010691 Coenzyme A binding pocket [chemical binding]; other site 398511010692 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 398511010693 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398511010694 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 398511010695 DNA binding residues [nucleotide binding] 398511010696 hypothetical protein; Provisional; Region: PRK07740 398511010697 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 398511010698 active site 398511010699 catalytic site [active] 398511010700 substrate binding site [chemical binding]; other site 398511010701 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398511010702 metal binding triad; other site 398511010703 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 398511010704 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 398511010705 Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately...; Region: REM; cl02520 398511010706 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 398511010707 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 398511010708 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 398511010709 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 398511010710 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 398511010711 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398511010712 active site 398511010713 catalytic tetrad [active] 398511010714 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 398511010715 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 398511010716 dimer interface [polypeptide binding]; other site 398511010717 conserved gate region; other site 398511010718 putative PBP binding loops; other site 398511010719 ABC-ATPase subunit interface; other site 398511010720 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 398511010721 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398511010722 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 398511010723 ligand binding site [chemical binding]; other site 398511010724 active site 398511010725 UGI interface [polypeptide binding]; other site 398511010726 catalytic site [active] 398511010727 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 398511010728 active site 398511010729 catalytic residues [active] 398511010730 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 398511010731 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 398511010732 active site turn [active] 398511010733 phosphorylation site [posttranslational modification] 398511010734 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 398511010735 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 398511010736 classical (c) SDRs; Region: SDR_c; cd05233 398511010737 NAD(P) binding site [chemical binding]; other site 398511010738 active site 398511010739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 398511010740 Nucleoside recognition; Region: Gate; pfam07670 398511010741 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 398511010742 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 398511010743 substrate binding [chemical binding]; other site 398511010744 active site 398511010745 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 398511010746 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 398511010747 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398511010748 azoreductase; Provisional; Region: PRK13556 398511010749 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398511010750 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 398511010751 dimer interface [polypeptide binding]; other site 398511010752 substrate binding site [chemical binding]; other site 398511010753 ATP binding site [chemical binding]; other site 398511010754 Predicted permeases [General function prediction only]; Region: RarD; COG2962 398511010755 EamA-like transporter family; Region: EamA; pfam00892 398511010756 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 398511010757 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 398511010758 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 398511010759 DinB superfamily; Region: DinB_2; pfam12867 398511010760 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398511010761 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398511010762 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 398511010763 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 398511010764 putative ligand binding residues [chemical binding]; other site 398511010765 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 398511010766 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398511010767 Walker A/P-loop; other site 398511010768 ATP binding site [chemical binding]; other site 398511010769 Q-loop/lid; other site 398511010770 ABC transporter signature motif; other site 398511010771 Walker B; other site 398511010772 D-loop; other site 398511010773 H-loop/switch region; other site 398511010774 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398511010775 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 398511010776 ABC-ATPase subunit interface; other site 398511010777 dimer interface [polypeptide binding]; other site 398511010778 putative PBP binding regions; other site 398511010779 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398511010780 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 398511010781 ABC-ATPase subunit interface; other site 398511010782 dimer interface [polypeptide binding]; other site 398511010783 putative PBP binding regions; other site 398511010784 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 398511010785 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 398511010786 ATP binding site [chemical binding]; other site 398511010787 Mg++ binding site [ion binding]; other site 398511010788 motif III; other site 398511010789 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 398511010790 nucleotide binding region [chemical binding]; other site 398511010791 ATP-binding site [chemical binding]; other site 398511010792 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 398511010793 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 398511010794 Ca binding site [ion binding]; other site 398511010795 active site 398511010796 catalytic site [active] 398511010797 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 398511010798 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 398511010799 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 398511010800 active site turn [active] 398511010801 phosphorylation site [posttranslational modification] 398511010802 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 398511010803 putative catalytic site [active] 398511010804 putative metal binding site [ion binding]; other site 398511010805 putative phosphate binding site [ion binding]; other site 398511010806 Ion channel; Region: Ion_trans_2; pfam07885 398511010807 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 398511010808 Cytochrome P450; Region: p450; cl12078 398511010809 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 398511010810 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 398511010811 polyhydroxyalkanoic acid synthase, PhaR subunit; Region: phaR_Bmeg; TIGR02132 398511010812 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 398511010813 Cytochrome P450; Region: p450; cl12078 398511010814 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 398511010815 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 398511010816 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 398511010817 NAD binding site [chemical binding]; other site 398511010818 active site 398511010819 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 398511010820 ThiC-associated domain; Region: ThiC-associated; pfam13667 398511010821 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 398511010822 Protein of unknown function (DUF3086); Region: DUF3086; pfam11285 398511010823 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398511010824 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398511010825 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 398511010826 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 398511010827 [2Fe-2S] cluster binding site [ion binding]; other site 398511010828 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 398511010829 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 398511010830 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398511010831 dimer interface [polypeptide binding]; other site 398511010832 putative metal binding site [ion binding]; other site 398511010833 Cache domain; Region: Cache_1; pfam02743 398511010834 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 398511010835 dimerization interface [polypeptide binding]; other site 398511010836 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398511010837 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398511010838 dimer interface [polypeptide binding]; other site 398511010839 putative CheW interface [polypeptide binding]; other site 398511010840 DNA topoisomerase III; Provisional; Region: PRK07726 398511010841 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 398511010842 active site 398511010843 putative interdomain interaction site [polypeptide binding]; other site 398511010844 putative metal-binding site [ion binding]; other site 398511010845 putative nucleotide binding site [chemical binding]; other site 398511010846 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 398511010847 domain I; other site 398511010848 DNA binding groove [nucleotide binding] 398511010849 phosphate binding site [ion binding]; other site 398511010850 domain II; other site 398511010851 domain III; other site 398511010852 nucleotide binding site [chemical binding]; other site 398511010853 catalytic site [active] 398511010854 domain IV; other site 398511010855 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 398511010856 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 398511010857 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 398511010858 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398511010859 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 398511010860 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398511010861 HTH-like domain; Region: HTH_21; pfam13276 398511010862 Integrase core domain; Region: rve; pfam00665 398511010863 Integrase core domain; Region: rve_2; pfam13333 398511010864 PUA domain; Region: PUA; cl00607 398511010865 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 398511010866 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 398511010867 putative RNA binding site [nucleotide binding]; other site 398511010868 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 398511010869 S-adenosylmethionine binding site [chemical binding]; other site 398511010870 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 398511010871 S-adenosylmethionine binding site [chemical binding]; other site 398511010872 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 398511010873 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398511010874 NAD binding site [chemical binding]; other site 398511010875 catalytic residues [active] 398511010876 substrate binding site [chemical binding]; other site 398511010877 Heat induced stress protein YflT; Region: YflT; pfam11181 398511010878 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398511010879 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398511010880 metal binding site [ion binding]; metal-binding site 398511010881 active site 398511010882 I-site; other site 398511010883 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 398511010884 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 398511010885 dimer interface [polypeptide binding]; other site 398511010886 putative tRNA-binding site [nucleotide binding]; other site 398511010887 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 398511010888 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 398511010889 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 398511010890 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 398511010891 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 398511010892 putative active site [active] 398511010893 metal binding site [ion binding]; metal-binding site 398511010894 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 398511010895 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 398511010896 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398511010897 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 398511010898 Mg binding site [ion binding]; other site 398511010899 nucleotide binding site [chemical binding]; other site 398511010900 putative protofilament interface [polypeptide binding]; other site 398511010901 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398511010902 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 398511010903 hydroperoxidase II; Provisional; Region: katE; PRK11249 398511010904 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 398511010905 tetramer interface [polypeptide binding]; other site 398511010906 heme binding pocket [chemical binding]; other site 398511010907 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 398511010908 domain interactions; other site 398511010909 PAS domain; Region: PAS_9; pfam13426 398511010910 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 398511010911 Gas vesicle protein; Region: Gas_vesicle; pfam00741 398511010912 Gas vesicle protein K; Region: GvpK; pfam05121 398511010913 Gas vesicle protein; Region: Gas_vesicle; pfam00741 398511010914 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 398511010915 Gas vesicle protein G; Region: GvpG; pfam05120 398511010916 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 398511010917 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 398511010918 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 398511010919 Walker A motif; other site 398511010920 ATP binding site [chemical binding]; other site 398511010921 Walker B motif; other site 398511010922 arginine finger; other site 398511010923 Gas vesicle synthesis protein GvpO; Region: GvpO; pfam05800 398511010924 gas vesicle synthesis protein GvpA; Provisional; Region: PRK09371 398511010925 gas vesicle synthesis protein GvpA; Provisional; Region: PRK09371 398511010926 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 398511010927 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 398511010928 FeS/SAM binding site; other site 398511010929 Coronavirus M matrix/glycoprotein; Region: Corona_M; pfam01635 398511010930 Protein of unknown function, DUF624; Region: DUF624; cl02369 398511010931 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 398511010932 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398511010933 putative active site [active] 398511010934 heme pocket [chemical binding]; other site 398511010935 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 398511010936 dimer interface [polypeptide binding]; other site 398511010937 phosphorylation site [posttranslational modification] 398511010938 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 398511010939 ATP binding site [chemical binding]; other site 398511010940 Mg2+ binding site [ion binding]; other site 398511010941 G-X-G motif; other site 398511010942 intracellular protease, PfpI family; Region: PfpI; TIGR01382 398511010943 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 398511010944 proposed catalytic triad [active] 398511010945 conserved cys residue [active] 398511010946 Pirin-related protein [General function prediction only]; Region: COG1741 398511010947 Pirin; Region: Pirin; pfam02678 398511010948 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 398511010949 Predicted membrane protein [Function unknown]; Region: COG2323 398511010950 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 398511010951 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 398511010952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511010953 homodimer interface [polypeptide binding]; other site 398511010954 catalytic residue [active] 398511010955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 398511010956 Nucleoside recognition; Region: Gate; pfam07670 398511010957 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 398511010958 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 398511010959 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 398511010960 catalytic core [active] 398511010961 malate:quinone oxidoreductase; Validated; Region: PRK05257 398511010962 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 398511010963 Predicted membrane protein [Function unknown]; Region: COG4682 398511010964 yiaA/B two helix domain; Region: YiaAB; pfam05360 398511010965 yiaA/B two helix domain; Region: YiaAB; pfam05360 398511010966 peroxiredoxin; Region: AhpC; TIGR03137 398511010967 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 398511010968 dimer interface [polypeptide binding]; other site 398511010969 decamer (pentamer of dimers) interface [polypeptide binding]; other site 398511010970 catalytic triad [active] 398511010971 peroxidatic and resolving cysteines [active] 398511010972 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 398511010973 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 398511010974 catalytic residue [active] 398511010975 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 398511010976 catalytic residues [active] 398511010977 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398511010978 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511010979 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398511010980 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398511010981 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 398511010982 putative active site [active] 398511010983 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 398511010984 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398511010985 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 398511010986 DctM-like transporters; Region: DctM; pfam06808 398511010987 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 398511010988 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398511010989 EamA-like transporter family; Region: EamA; cl17759 398511010990 EamA-like transporter family; Region: EamA; pfam00892 398511010991 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 398511010992 CxxH/CxxC protein, BA_5709 family; Region: CxxH_BA5709; TIGR04129 398511010993 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398511010994 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 398511010995 protein binding site [polypeptide binding]; other site 398511010996 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 398511010997 YycH protein; Region: YycI; cl02015 398511010998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 398511010999 YycH protein; Region: YycH; pfam07435 398511011000 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 398511011001 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 398511011002 dimerization interface [polypeptide binding]; other site 398511011003 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 398511011004 putative active site [active] 398511011005 heme pocket [chemical binding]; other site 398511011006 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 398511011007 dimer interface [polypeptide binding]; other site 398511011008 phosphorylation site [posttranslational modification] 398511011009 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 398511011010 ATP binding site [chemical binding]; other site 398511011011 Mg2+ binding site [ion binding]; other site 398511011012 G-X-G motif; other site 398511011013 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511011014 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 398511011015 active site 398511011016 phosphorylation site [posttranslational modification] 398511011017 intermolecular recognition site; other site 398511011018 dimerization interface [polypeptide binding]; other site 398511011019 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 398511011020 DNA binding site [nucleotide binding] 398511011021 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 398511011022 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 398511011023 GDP-binding site [chemical binding]; other site 398511011024 ACT binding site; other site 398511011025 IMP binding site; other site 398511011026 replicative DNA helicase; Provisional; Region: PRK05748 398511011027 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 398511011028 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 398511011029 Walker A motif; other site 398511011030 ATP binding site [chemical binding]; other site 398511011031 Walker B motif; other site 398511011032 DNA binding loops [nucleotide binding] 398511011033 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 398511011034 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 398511011035 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 398511011036 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 398511011037 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398511011038 active site 398511011039 I-site; other site 398511011040 metal binding site [ion binding]; metal-binding site 398511011041 DHH family; Region: DHH; pfam01368 398511011042 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 398511011043 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 398511011044 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 398511011045 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 398511011046 dimer interface [polypeptide binding]; other site 398511011047 ssDNA binding site [nucleotide binding]; other site 398511011048 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398511011049 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 398511011050 GTP-binding protein YchF; Reviewed; Region: PRK09601 398511011051 YchF GTPase; Region: YchF; cd01900 398511011052 G1 box; other site 398511011053 GTP/Mg2+ binding site [chemical binding]; other site 398511011054 Switch I region; other site 398511011055 G2 box; other site 398511011056 Switch II region; other site 398511011057 G3 box; other site 398511011058 G4 box; other site 398511011059 G5 box; other site 398511011060 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 398511011061 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 398511011062 Uncharacterized membrane protein [Function unknown]; Region: COG3949 398511011063 putative sporulation protein YyaC; Region: spore_YyaC; TIGR02841 398511011064 Protein of unknown function (DUF554); Region: DUF554; pfam04474 398511011065 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 398511011066 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 398511011067 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398511011068 catalytic residue [active] 398511011069 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 398511011070 ParB-like nuclease domain; Region: ParB; smart00470 398511011071 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398511011072 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 398511011073 P-loop; other site 398511011074 Magnesium ion binding site [ion binding]; other site 398511011075 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 398511011076 Magnesium ion binding site [ion binding]; other site 398511011077 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 398511011078 ParB-like nuclease domain; Region: ParB; smart00470 398511011079 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 398511011080 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 398511011081 S-adenosylmethionine binding site [chemical binding]; other site 398511011082 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 398511011083 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 398511011084 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 398511011085 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 398511011086 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 398511011087 trmE is a tRNA modification GTPase; Region: trmE; cd04164 398511011088 G1 box; other site 398511011089 GTP/Mg2+ binding site [chemical binding]; other site 398511011090 Switch I region; other site 398511011091 G2 box; other site 398511011092 Switch II region; other site 398511011093 G3 box; other site 398511011094 G4 box; other site 398511011095 G5 box; other site 398511011096 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 398511011097 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 398511011098 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 398511011099 G-X-X-G motif; other site 398511011100 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 398511011101 RxxxH motif; other site 398511011102 OxaA-like protein precursor; Validated; Region: PRK02944 398511011103 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 398511011104 ribonuclease P; Reviewed; Region: rnpA; PRK00499 398511011105 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 398511011106 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398511011107 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398511011108 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398511011109 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 398511011110 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 398511011111 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 398511011112 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 398511011113 dimerization interface [polypeptide binding]; other site 398511011114 DPS ferroxidase diiron center [ion binding]; other site 398511011115 ion pore; other site 398511011116 Cache domain; Region: Cache_1; pfam02743 398511011117 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 398511011118 dimerization interface [polypeptide binding]; other site 398511011119 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398511011120 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398511011121 dimer interface [polypeptide binding]; other site 398511011122 putative CheW interface [polypeptide binding]; other site 398511011123 LXG domain of WXG superfamily; Region: LXG; pfam04740 398511011124 YolD-like protein; Region: YolD; pfam08863 398511011125 DNA polymerase IV; Reviewed; Region: PRK03103 398511011126 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 398511011127 active site 398511011128 DNA binding site [nucleotide binding] 398511011129 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 398511011130 Transposase IS200 like; Region: Y1_Tnp; pfam01797 398511011131 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 398511011132 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 398511011133 Probable transposase; Region: OrfB_IS605; pfam01385 398511011134 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 398511011135 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 398511011136 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 398511011137 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; pfam02899 398511011138 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 398511011139 active site 398511011140 DNA binding site [nucleotide binding] 398511011141 Int/Topo IB signature motif; other site 398511011142 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 398511011143 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 398511011144 active site 398511011145 DNA binding site [nucleotide binding] 398511011146 Int/Topo IB signature motif; other site 398511011147 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398511011148 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 398511011149 S-adenosylmethionine binding site [chemical binding]; other site 398511011150 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 398511011151 dimerization interface [polypeptide binding]; other site 398511011152 putative DNA binding site [nucleotide binding]; other site 398511011153 putative Zn2+ binding site [ion binding]; other site 398511011154 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398511011155 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 398511011156 metal-binding site [ion binding] 398511011157 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398511011158 Soluble P-type ATPase [General function prediction only]; Region: COG4087 398511011159 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 398511011160 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 398511011161 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511011162 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398511011163 cadmium resistance transporter (or sequestration) family protein; Region: cad; TIGR00779 398511011164 Cadmium resistance transporter; Region: Cad; pfam03596 398511011165 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 398511011166 active site 398511011167 The Oligonucleotide/oligosaccharide binding (OB)-fold domain is a DNA-binding module that is part of the catalytic core unit of ATP dependent DNA ligases; Region: OBF_DNA_ligase_family; cl08424 398511011168 DNA binding site [nucleotide binding] 398511011169 MgtE intracellular N domain; Region: MgtE_N; cl15244 398511011170 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398511011171 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 398511011172 DNA binding residues [nucleotide binding] 398511011173 dimerization interface [polypeptide binding]; other site 398511011174 S-layer homology domain; Region: SLH; pfam00395 398511011175 S-layer homology domain; Region: SLH; pfam00395 398511011176 S-layer homology domain; Region: SLH; pfam00395 398511011177 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 398511011178 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398511011179 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 398511011180 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 398511011181 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 398511011182 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 398511011183 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 398511011184 dimer interface [polypeptide binding]; other site 398511011185 ssDNA binding site [nucleotide binding]; other site 398511011186 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398511011187 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 398511011188 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 398511011189 active site 398511011190 Int/Topo IB signature motif; other site 398511011191 DNA binding site [nucleotide binding] 398511011192 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 398511011193 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 398511011194 active site 398511011195 DNA binding site [nucleotide binding] 398511011196 Int/Topo IB signature motif; other site 398511011197 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 398511011198 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 398511011199 putative active site [active] 398511011200 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 398511011201 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 398511011202 dimer interface [polypeptide binding]; other site 398511011203 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398511011204 catalytic residue [active] 398511011205 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 398511011206 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 398511011207 Transposase; Region: DDE_Tnp_ISL3; pfam01610 398511011208 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 398511011209 Transposase; Region: DDE_Tnp_ISL3; pfam01610 398511011210 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398511011211 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 398511011212 metal-binding site [ion binding] 398511011213 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398511011214 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 398511011215 metal-binding site [ion binding] 398511011216 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398511011217 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 398511011218 motif II; other site 398511011219 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398511011220 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 398511011221 metal-binding site [ion binding] 398511011222 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 398511011223 trimer interface [polypeptide binding]; other site 398511011224 active site 398511011225 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398511011226 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 398511011227 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 398511011228 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 398511011229 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 398511011230 active site 398511011231 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 398511011232 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 398511011233 putative active site [active] 398511011234 putative NTP binding site [chemical binding]; other site 398511011235 putative nucleic acid binding site [nucleotide binding]; other site 398511011236 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 398511011237 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 398511011238 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 398511011239 putative active site [active] 398511011240 putative NTP binding site [chemical binding]; other site 398511011241 putative nucleic acid binding site [nucleotide binding]; other site 398511011242 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 398511011243 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 398511011244 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398511011245 Integrase core domain; Region: rve; pfam00665 398511011246 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398511011247 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 398511011248 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 398511011249 Walker A motif; other site 398511011250 ATP binding site [chemical binding]; other site 398511011251 Walker B motif; other site 398511011252 Predicted membrane protein [Function unknown]; Region: COG3462 398511011253 Predicted coiled-coil domain-containing protein; Region: KLRAQ; pfam10205 398511011254 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 398511011255 Poly [ADP-ribose] polymerase; Provisional; Region: PLN03122 398511011256 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 398511011257 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 398511011258 potential frameshift: common BLAST hit: gi|114567789|ref|YP_754943.1| transposase 398511011259 CopC domain; Region: CopC; pfam04234 398511011260 CopC domain; Region: CopC; cl01012 398511011261 Copper resistance protein D; Region: CopD; cl00563 398511011262 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398511011263 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 398511011264 dimerization interface [polypeptide binding]; other site 398511011265 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 398511011266 dimer interface [polypeptide binding]; other site 398511011267 phosphorylation site [posttranslational modification] 398511011268 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 398511011269 ATP binding site [chemical binding]; other site 398511011270 Mg2+ binding site [ion binding]; other site 398511011271 G-X-G motif; other site 398511011272 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511011273 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 398511011274 active site 398511011275 phosphorylation site [posttranslational modification] 398511011276 intermolecular recognition site; other site 398511011277 dimerization interface [polypeptide binding]; other site 398511011278 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 398511011279 DNA binding site [nucleotide binding] 398511011280 Family description; Region: DsbD_2; pfam13386 398511011281 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 398511011282 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 398511011283 dimerization interface [polypeptide binding]; other site 398511011284 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cl00425 398511011285 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 398511011286 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 398511011287 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 398511011288 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 398511011289 Uncharacterized conserved protein [Function unknown]; Region: COG3391 398511011290 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 398511011291 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 398511011292 Uncharacterized conserved protein [Function unknown]; Region: COG0398 398511011293 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 398511011294 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 398511011295 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 398511011296 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 398511011297 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 398511011298 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398511011299 putative substrate translocation pore; other site 398511011300 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 398511011301 dimerization interface [polypeptide binding]; other site 398511011302 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 398511011303 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 398511011304 potential frameshift: common BLAST hit: gi|15616547|ref|NP_244853.1| transposase (13) 398511011305 Uncharacterized conserved protein [Function unknown]; Region: COG0398 398511011306 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 398511011307 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 398511011308 stage II sporulation protein P; Region: spore_II_P; TIGR02867 398511011309 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 398511011310 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 398511011311 active site residue [active] 398511011312 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 398511011313 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 398511011314 active site 398511011315 dimer interface [polypeptide binding]; other site 398511011316 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 398511011317 Ligand Binding Site [chemical binding]; other site 398511011318 Molecular Tunnel; other site 398511011319 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 398511011320 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 398511011321 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 398511011322 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 398511011323 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 398511011324 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 398511011325 ResB-like family; Region: ResB; pfam05140 398511011326 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 398511011327 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398511011328 catalytic residues [active] 398511011329 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398511011330 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 398511011331 dimerization interface [polypeptide binding]; other site 398511011332 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 398511011333 dimer interface [polypeptide binding]; other site 398511011334 phosphorylation site [posttranslational modification] 398511011335 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 398511011336 ATP binding site [chemical binding]; other site 398511011337 Mg2+ binding site [ion binding]; other site 398511011338 G-X-G motif; other site 398511011339 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398511011340 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 398511011341 active site 398511011342 phosphorylation site [posttranslational modification] 398511011343 intermolecular recognition site; other site 398511011344 dimerization interface [polypeptide binding]; other site 398511011345 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 398511011346 DNA binding site [nucleotide binding] 398511011347 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 398511011348 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 398511011349 intersubunit interface [polypeptide binding]; other site 398511011350 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 398511011351 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 398511011352 Multicopper oxidase; Region: Cu-oxidase; pfam00394 398511011353 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 398511011354 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 398511011355 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 398511011356 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 398511011357 metal binding site [ion binding]; metal-binding site 398511011358 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 398511011359 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 398511011360 ABC-ATPase subunit interface; other site 398511011361 dimer interface [polypeptide binding]; other site 398511011362 putative PBP binding regions; other site 398511011363 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 398511011364 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 398511011365 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398511011366 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 398511011367 Walker A motif; other site 398511011368 ATP binding site [chemical binding]; other site 398511011369 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398511011370 Integrase core domain; Region: rve; pfam00665 398511011371 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 398511011372 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 398511011373 active site 398511011374 DNA binding site [nucleotide binding] 398511011375 Int/Topo IB signature motif; other site 398511011376 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 398511011377 metal-binding site [ion binding] 398511011378 mercuric reductase; Region: MerA; TIGR02053 398511011379 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398511011380 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398511011381 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; cl00207 398511011382 Membrane transport protein MerF; Region: Transport_MerF; pfam11431 398511011383 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 398511011384 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 398511011385 DNA binding residues [nucleotide binding] 398511011386 dimer interface [polypeptide binding]; other site 398511011387 mercury binding site [ion binding]; other site 398511011388 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398511011389 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 398511011390 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398511011391 catalytic residue [active] 398511011392 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398511011393 Peptidase family M23; Region: Peptidase_M23; pfam01551 398511011394 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 398511011395 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 398511011396 AAA-like domain; Region: AAA_10; pfam12846 398511011397 Domain of unknown function DUF87; Region: DUF87; pfam01935 398511011398 PrgI family protein; Region: PrgI; pfam12666 398511011399 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 398511011400 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 398511011401 nucleotide binding region [chemical binding]; other site 398511011402 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 398511011403 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 398511011404 putative active site [active] 398511011405 putative NTP binding site [chemical binding]; other site 398511011406 putative nucleic acid binding site [nucleotide binding]; other site 398511011407 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 398511011408 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 398511011409 active site 398511011410 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; cl17512 398511011411 beta-clamp/clamp loader binding surface; other site 398511011412 beta-clamp/translesion DNA polymerase binding surface; other site 398511011413 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 398511011414 DNA polymerase III subunit delta'; Validated; Region: PRK08485 398511011415 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 398511011416 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 398511011417 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 398511011418 putative active site [active] 398511011419 putative NTP binding site [chemical binding]; other site 398511011420 putative nucleic acid binding site [nucleotide binding]; other site 398511011421 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 398511011422 active site 398511011423 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 398511011424 Walker A motif; other site 398511011425 ATP binding site [chemical binding]; other site 398511011426 Walker B motif; other site 398511011427 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 398511011428 ATP binding site [chemical binding]; other site 398511011429 substrate interface [chemical binding]; other site 398511011430 PRTRC system protein A; Region: PRTRC_A; TIGR03735 398511011431 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 398511011432 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398511011433 Integrase core domain; Region: rve; pfam00665 398511011434 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398511011435 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 398511011436 Walker A motif; other site 398511011437 ATP binding site [chemical binding]; other site 398511011438 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 398511011439 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 398511011440 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 398511011441 active site 398511011442 motif I; other site 398511011443 motif II; other site 398511011444 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 398511011445 Predicted membrane protein [Function unknown]; Region: COG2364 398511011446 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398511011447 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398511011448 DNA binding site [nucleotide binding] 398511011449 domain linker motif; other site 398511011450 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 398511011451 putative dimerization interface [polypeptide binding]; other site 398511011452 putative ligand binding site [chemical binding]; other site 398511011453 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 398511011454 active site 398511011455 2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, and related enzymes [Energy production and conversion]; Region: SucA; COG0567 398511011456 Telomere capping C-terminal wHTH; Region: Stn1_C; pfam12659 398511011457 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 398511011458 Active Sites [active] 398511011459 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 398511011460 Protein of unknown function (DUF4257); Region: DUF4257; pfam14074 398511011461 DNA repair protein radc; Region: radc; TIGR00608 398511011462 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 398511011463 MPN+ (JAMM) motif; other site 398511011464 Zinc-binding site [ion binding]; other site 398511011465 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 398511011466 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 398511011467 dimer interface [polypeptide binding]; other site 398511011468 ssDNA binding site [nucleotide binding]; other site 398511011469 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398511011470 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 398511011471 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 398511011472 putative active site [active] 398511011473 putative NTP binding site [chemical binding]; other site 398511011474 putative nucleic acid binding site [nucleotide binding]; other site 398511011475 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 398511011476 active site 398511011477 CHC2 zinc finger; Region: zf-CHC2; cl17510 398511011478 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 398511011479 Transposase domain (DUF772); Region: DUF772; pfam05598 398511011480 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398511011481 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 398511011482 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 398511011483 metal ion-dependent adhesion site (MIDAS); other site 398511011484 MoxR-like ATPases [General function prediction only]; Region: COG0714 398511011485 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 398511011486 Walker A motif; other site 398511011487 ATP binding site [chemical binding]; other site 398511011488 Walker B motif; other site 398511011489 arginine finger; other site 398511011490 LabA_like proteins; Region: LabA_like; cd06167 398511011491 putative metal binding site [ion binding]; other site 398511011492 Uncharacterized conserved protein [Function unknown]; Region: COG1432 398511011493 Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Region: RpsA; COG0539 398511011494 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 398511011495 RNA binding site [nucleotide binding]; other site 398511011496 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 398511011497 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 398511011498 Probable transposase; Region: OrfB_IS605; pfam01385 398511011499 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 398511011500 Transposase IS200 like; Region: Y1_Tnp; pfam01797 398511011501 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 398511011502 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 398511011503 Replication-relaxation; Region: Replic_Relax; pfam13814 398511011504 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 398511011505 Mg binding site [ion binding]; other site 398511011506 nucleotide binding site [chemical binding]; other site 398511011507 putative protofilament interface [polypeptide binding]; other site 398511011508 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398511011509 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398511011510 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398511011511 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398511011512 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398511011513 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398511011514 Methyltransferase domain; Region: Methyltransf_11; pfam08241 398511011515 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511011516 Coenzyme A binding pocket [chemical binding]; other site 398511011517 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 398511011518 Beta-lactamase; Region: Beta-lactamase; pfam00144 398511011519 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398511011520 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398511011521 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398511011522 Coenzyme A binding pocket [chemical binding]; other site 398511011523 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 398511011524 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 398511011525 Zn binding site [ion binding]; other site 398511011526 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 398511011527 active site 398511011528 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 398511011529 non-specific DNA binding site [nucleotide binding]; other site 398511011530 salt bridge; other site 398511011531 sequence-specific DNA binding site [nucleotide binding]; other site 398511011532 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 398511011533 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 398511011534 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 398511011535 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 398511011536 Walker A motif; other site 398511011537 ATP binding site [chemical binding]; other site 398511011538 Walker B motif; other site 398511011539 S-layer homology domain; Region: SLH; pfam00395 398511011540 S-layer homology domain; Region: SLH; pfam00395 398511011541 S-layer homology domain; Region: SLH; pfam00395 398511011542 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398511011543 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398511011544 metal binding site [ion binding]; metal-binding site 398511011545 active site 398511011546 I-site; other site 398511011547 Probable transposase; Region: OrfB_IS605; pfam01385 398511011548 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 398511011549 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 398511011550 Part of AAA domain; Region: AAA_19; pfam13245 398511011551 AAA domain; Region: AAA_12; pfam13087 398511011552 Helix-turn-helix domain; Region: HTH_17; pfam12728 398511011553 Helix-turn-helix domain; Region: HTH_17; pfam12728 398511011554 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 398511011555 Domain of unknown function (DUF348); Region: DUF348; pfam03990 398511011556 G5 domain; Region: G5; pfam07501 398511011557 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 398511011558 transposase; Provisional; Region: PRK06526 398511011559 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 398511011560 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 398511011561 DNA polymerase III subunit beta; Validated; Region: PRK05643 398511011562 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 398511011563 putative DNA binding surface [nucleotide binding]; other site 398511011564 dimer interface [polypeptide binding]; other site 398511011565 beta-clamp/clamp loader binding surface; other site 398511011566 beta-clamp/translesion DNA polymerase binding surface; other site 398511011567 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 398511011568 active site 398511011569 putative interdomain interaction site [polypeptide binding]; other site 398511011570 putative metal-binding site [ion binding]; other site 398511011571 putative nucleotide binding site [chemical binding]; other site 398511011572 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 398511011573 domain I; other site 398511011574 phosphate binding site [ion binding]; other site 398511011575 Bacterial DNA topoisomerase I DNA-binding domain; Region: TOP1Ac; smart00437 398511011576 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 398511011577 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 398511011578 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398511011579 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 398511011580 non-specific DNA binding site [nucleotide binding]; other site 398511011581 salt bridge; other site 398511011582 sequence-specific DNA binding site [nucleotide binding]; other site 398511011583 Staphylococcal nuclease homologues; Region: SNc; smart00318 398511011584 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 398511011585 Catalytic site; other site 398511011586 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 398511011587 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 398511011588 Protein of unknown function (Hypoth_ymh); Region: Hypoth_Ymh; pfam09509 398511011589 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 398511011590 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 398511011591 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 398511011592 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 398511011593 active site 398511011594 DNA binding site [nucleotide binding] 398511011595 Int/Topo IB signature motif; other site 398511011596 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398511011597 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 398511011598 non-specific DNA binding site [nucleotide binding]; other site 398511011599 salt bridge; other site 398511011600 sequence-specific DNA binding site [nucleotide binding]; other site 398511011601 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 398511011602 YcaO-like family; Region: YcaO; pfam02624 398511011603 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 398511011604 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 398511011605 putative FMN binding site [chemical binding]; other site 398511011606 NADPH bind site [chemical binding]; other site 398511011607 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 398511011608 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 398511011609 H+ Antiporter protein; Region: 2A0121; TIGR00900 398511011610 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 398511011611 putative substrate translocation pore; other site 398511011612 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 398511011613 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398511011614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398511011615 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398511011616 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 398511011617 nudix motif; other site 398511011618 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398511011619 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 398511011620 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 398511011621 Walker A motif; other site 398511011622 ATP binding site [chemical binding]; other site 398511011623 Walker B motif; other site 398511011624 Helix-turn-helix domain; Region: HTH_38; pfam13936 398511011625 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 398511011626 Integrase core domain; Region: rve; pfam00665 398511011627 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 398511011628 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 398511011629 Protein of unknown function (DUF3888); Region: DUF3888; pfam13027 398511011630 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 398511011631 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398511011632 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398511011633 DNA binding site [nucleotide binding] 398511011634 domain linker motif; other site 398511011635 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 398511011636 ligand binding site [chemical binding]; other site 398511011637 dimerization interface [polypeptide binding]; other site 398511011638 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398511011639 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 398511011640 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 398511011641 DctM-like transporters; Region: DctM; pfam06808 398511011642 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 398511011643 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 398511011644 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 398511011645 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 398511011646 active site 398511011647 metal binding site [ion binding]; metal-binding site 398511011648 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398511011649 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398511011650 NAD(P) binding site [chemical binding]; other site 398511011651 catalytic residues [active] 398511011652 hypothetical protein; Validated; Region: PRK06201 398511011653 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 398511011654 glyoxylate reductase; Reviewed; Region: PRK13243 398511011655 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 398511011656 dimerization interface [polypeptide binding]; other site 398511011657 ligand binding site [chemical binding]; other site 398511011658 NADP binding site [chemical binding]; other site 398511011659 catalytic site [active] 398511011660 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 398511011661 YvrJ protein family; Region: YvrJ; pfam12841 398511011662 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398511011663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398511011664 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 398511011665 active site 398511011666 DNA binding site [nucleotide binding] 398511011667 Int/Topo IB signature motif; other site 398511011668 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 398511011669 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 398511011670 TrkA-C domain; Region: TrkA_C; pfam02080 398511011671 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 398511011672 active site 398511011673 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 398511011674 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 398511011675 Domain of unknown function DUF20; Region: UPF0118; pfam01594 398511011676 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 398511011677 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 398511011678 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398511011679 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 398511011680 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 398511011681 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 398511011682 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 398511011683 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 398511011684 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 398511011685 PhoU domain; Region: PhoU; pfam01895 398511011686 PhoU domain; Region: PhoU; pfam01895 398511011687 FOG: CBS domain [General function prediction only]; Region: COG0517 398511011688 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 398511011689 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 398511011690 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 398511011691 diguanylate cyclase; Provisional; Region: PRK09894 398511011692 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 398511011693 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398511011694 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398511011695 DNA binding site [nucleotide binding] 398511011696 domain linker motif; other site 398511011697 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 398511011698 putative ligand binding site [chemical binding]; other site 398511011699 putative dimerization interface [polypeptide binding]; other site 398511011700 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 398511011701 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 398511011702 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 398511011703 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 398511011704 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 398511011705 dimer interface [polypeptide binding]; other site 398511011706 ssDNA binding site [nucleotide binding]; other site 398511011707 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398511011708 Initiator Replication protein; Region: Rep_3; pfam01051 398511011709 Helper component proteinase; Region: Peptidase_C6; pfam00851 398511011710 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398511011711 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 398511011712 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 398511011713 active site 398511011714 DNA binding site [nucleotide binding] 398511011715 Int/Topo IB signature motif; other site 398511011716 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 398511011717 non-specific DNA binding site [nucleotide binding]; other site 398511011718 salt bridge; other site 398511011719 sequence-specific DNA binding site [nucleotide binding]; other site 398511011720 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 398511011721 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 398511011722 multiple promoter invertase; Provisional; Region: mpi; PRK13413 398511011723 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 398511011724 catalytic residues [active] 398511011725 catalytic nucleophile [active] 398511011726 Presynaptic Site I dimer interface [polypeptide binding]; other site 398511011727 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 398511011728 Synaptic Flat tetramer interface [polypeptide binding]; other site 398511011729 Synaptic Site I dimer interface [polypeptide binding]; other site 398511011730 DNA binding site [nucleotide binding] 398511011731 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 398511011732 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 398511011733 dimerization interface [polypeptide binding]; other site 398511011734 putative DNA binding site [nucleotide binding]; other site 398511011735 putative Zn2+ binding site [ion binding]; other site 398511011736 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398511011737 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 398511011738 metal-binding site [ion binding] 398511011739 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398511011740 Soluble P-type ATPase [General function prediction only]; Region: COG4087 398511011741 Cadmium resistance transporter; Region: Cad; pfam03596 398511011742 cadmium resistance transporter (or sequestration) family protein; Region: cad; TIGR00779 398511011743 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 398511011744 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398511011745 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 398511011746 putative protofilament interface [polypeptide binding]; other site 398511011747 nucleotide binding site [chemical binding]; other site 398511011748 AAA-like domain; Region: AAA_10; pfam12846 398511011749 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 398511011750 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 398511011751 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 398511011752 TcpE family; Region: TcpE; pfam12648 398511011753 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 398511011754 AAA-like domain; Region: AAA_10; pfam12846 398511011755 Walker A motif; other site 398511011756 ATP binding site [chemical binding]; other site 398511011757 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 398511011758 Semenogelin; Region: Semenogelin; pfam05474 398511011759 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 398511011760 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398511011761 catalytic residue [active] 398511011762 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398511011763 Peptidase family M23; Region: Peptidase_M23; pfam01551 398511011764 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 398511011765 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 398511011766 active site 398511011767 catalytic residues [active] 398511011768 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 398511011769 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398511011770 catalytic residue [active] 398511011771 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398511011772 Peptidase family M23; Region: Peptidase_M23; pfam01551 398511011773 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 398511011774 putative active site [active] 398511011775 putative metal-binding site [ion binding]; other site 398511011776 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 398511011777 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 398511011778 catalytic residues [active] 398511011779 catalytic nucleophile [active] 398511011780 Presynaptic Site I dimer interface [polypeptide binding]; other site 398511011781 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 398511011782 Synaptic Flat tetramer interface [polypeptide binding]; other site 398511011783 Synaptic Site I dimer interface [polypeptide binding]; other site 398511011784 DNA binding site [nucleotide binding] 398511011785 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 398511011786 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398511011787 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 398511011788 Walker A/P-loop; other site 398511011789 ATP binding site [chemical binding]; other site 398511011790 Q-loop/lid; other site 398511011791 ABC transporter signature motif; other site 398511011792 Walker B; other site 398511011793 D-loop; other site 398511011794 H-loop/switch region; other site 398511011795 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 398511011796 binding surface 398511011797 TPR motif; other site 398511011798 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 398511011799 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 398511011800 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 398511011801 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 398511011802 active site