-- dump date 20140619_101607 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1111068000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1111068000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1111068000003 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 1111068000004 Walker A motif; other site 1111068000005 ATP binding site [chemical binding]; other site 1111068000006 Walker B motif; other site 1111068000007 arginine finger; other site 1111068000008 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 1111068000009 DnaA box-binding interface [nucleotide binding]; other site 1111068000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1111068000011 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 1111068000012 putative DNA binding surface [nucleotide binding]; other site 1111068000013 dimer interface [polypeptide binding]; other site 1111068000014 beta-clamp/clamp loader binding surface; other site 1111068000015 beta-clamp/translesion DNA polymerase binding surface; other site 1111068000016 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 1111068000017 recombination protein F; Reviewed; Region: recF; PRK00064 1111068000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1111068000019 Walker A/P-loop; other site 1111068000020 ATP binding site [chemical binding]; other site 1111068000021 Q-loop/lid; other site 1111068000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1111068000023 ABC transporter signature motif; other site 1111068000024 Walker B; other site 1111068000025 D-loop; other site 1111068000026 H-loop/switch region; other site 1111068000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1111068000028 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 1111068000029 Mg2+ binding site [ion binding]; other site 1111068000030 G-X-G motif; other site 1111068000031 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 1111068000032 anchoring element; other site 1111068000033 dimer interface [polypeptide binding]; other site 1111068000034 ATP binding site [chemical binding]; other site 1111068000035 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 1111068000036 active site 1111068000037 putative metal-binding site [ion binding]; other site 1111068000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1111068000039 DNA gyrase subunit A; Validated; Region: PRK05560 1111068000040 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 1111068000041 CAP-like domain; other site 1111068000042 active site 1111068000043 primary dimer interface [polypeptide binding]; other site 1111068000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1111068000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1111068000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1111068000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1111068000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1111068000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1111068000050 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1111068000051 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1111068000052 Zn2+ binding site [ion binding]; other site 1111068000053 Mg2+ binding site [ion binding]; other site 1111068000054 potential protein location (hypothetical protein GTCCBUS3UF5_100 [Geobacillus thermoleovorans CCB_US3_UF5]) that overlaps RNA (23S ribosomal RNA) 1111068000055 YaaC-like Protein; Region: YaaC; pfam14175 1111068000056 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1111068000057 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 1111068000058 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 1111068000059 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 1111068000060 active site 1111068000061 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1111068000062 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1111068000063 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1111068000064 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1111068000065 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 1111068000066 active site 1111068000067 multimer interface [polypeptide binding]; other site 1111068000068 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1111068000069 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 1111068000070 predicted active site [active] 1111068000071 catalytic triad [active] 1111068000072 seryl-tRNA synthetase; Provisional; Region: PRK05431 1111068000073 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1111068000074 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 1111068000075 dimer interface [polypeptide binding]; other site 1111068000076 active site 1111068000077 motif 1; other site 1111068000078 motif 2; other site 1111068000079 motif 3; other site 1111068000080 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 1111068000081 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068000082 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068000083 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 1111068000084 active site 1111068000085 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 1111068000086 nucleoside/Zn binding site; other site 1111068000087 dimer interface [polypeptide binding]; other site 1111068000088 catalytic motif [active] 1111068000089 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1111068000090 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 1111068000091 Walker A motif; other site 1111068000092 ATP binding site [chemical binding]; other site 1111068000093 Walker B motif; other site 1111068000094 arginine finger; other site 1111068000095 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1111068000096 hypothetical protein; Validated; Region: PRK00153 1111068000097 recombination protein RecR; Reviewed; Region: recR; PRK00076 1111068000098 RecR protein; Region: RecR; pfam02132 1111068000099 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 1111068000100 putative active site [active] 1111068000101 putative metal-binding site [ion binding]; other site 1111068000102 tetramer interface [polypeptide binding]; other site 1111068000103 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 1111068000104 pro-sigmaK processing inhibitor BofA; Region: spore_BofA; TIGR02862 1111068000105 potential protein location (hypothetical protein GTCCBUS3UF5_250 [Geobacillus thermoleovorans CCB_US3_UF5]) that overlaps RNA (23S ribosomal RNA) 1111068000106 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 1111068000107 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1111068000108 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 1111068000109 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1111068000110 catalytic residue [active] 1111068000111 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1111068000112 thymidylate kinase; Validated; Region: tmk; PRK00698 1111068000113 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 1111068000114 TMP-binding site; other site 1111068000115 ATP-binding site [chemical binding]; other site 1111068000116 DNA polymerase III subunit delta'; Validated; Region: PRK08058 1111068000117 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1111068000118 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 1111068000119 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 1111068000120 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1111068000121 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 1111068000122 S-adenosylmethionine binding site [chemical binding]; other site 1111068000123 Predicted methyltransferases [General function prediction only]; Region: COG0313 1111068000124 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1111068000125 putative SAM binding site [chemical binding]; other site 1111068000126 putative homodimer interface [polypeptide binding]; other site 1111068000127 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1111068000128 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1111068000129 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1111068000130 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1111068000131 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1111068000132 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1111068000133 active site 1111068000134 HIGH motif; other site 1111068000135 KMSKS motif; other site 1111068000136 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1111068000137 tRNA binding surface [nucleotide binding]; other site 1111068000138 anticodon binding site; other site 1111068000139 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 1111068000140 dimer interface [polypeptide binding]; other site 1111068000141 putative tRNA-binding site [nucleotide binding]; other site 1111068000142 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1111068000143 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1111068000144 active site 1111068000145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 1111068000146 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1111068000147 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1111068000148 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1111068000149 G5 domain; Region: G5; pfam07501 1111068000150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 1111068000151 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1111068000152 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 1111068000153 putative active site [active] 1111068000154 putative metal binding site [ion binding]; other site 1111068000155 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1111068000156 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1111068000157 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 1111068000158 S-adenosylmethionine binding site [chemical binding]; other site 1111068000159 sporulation peptidase YabG; Region: spore_yabG; TIGR02855 1111068000160 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 1111068000161 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1111068000162 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068000163 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1111068000164 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1111068000165 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1111068000166 pur operon repressor; Provisional; Region: PRK09213 1111068000167 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1111068000168 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1111068000169 active site 1111068000170 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 1111068000171 homotrimer interaction site [polypeptide binding]; other site 1111068000172 putative active site [active] 1111068000173 regulatory protein SpoVG; Reviewed; Region: PRK13259 1111068000174 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1111068000175 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1111068000176 Substrate binding site; other site 1111068000177 Mg++ binding site; other site 1111068000178 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 1111068000179 active site 1111068000180 substrate binding site [chemical binding]; other site 1111068000181 CoA binding site [chemical binding]; other site 1111068000182 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1111068000183 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1111068000184 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1111068000185 active site 1111068000186 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1111068000187 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1111068000188 5S rRNA interface [nucleotide binding]; other site 1111068000189 CTC domain interface [polypeptide binding]; other site 1111068000190 L16 interface [polypeptide binding]; other site 1111068000191 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 1111068000192 putative active site [active] 1111068000193 catalytic residue [active] 1111068000194 Protein of unknown function (DUF2757); Region: DUF2757; pfam10955 1111068000195 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1111068000196 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1111068000197 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 1111068000198 ATP binding site [chemical binding]; other site 1111068000199 putative Mg++ binding site [ion binding]; other site 1111068000200 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 1111068000201 nucleotide binding region [chemical binding]; other site 1111068000202 ATP-binding site [chemical binding]; other site 1111068000203 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1111068000204 stage V sporulation protein T; Region: spore_V_T; TIGR02851 1111068000205 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1111068000206 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1111068000207 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1111068000208 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 1111068000209 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 1111068000210 putative SAM binding site [chemical binding]; other site 1111068000211 putative homodimer interface [polypeptide binding]; other site 1111068000212 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 1111068000213 homodimer interface [polypeptide binding]; other site 1111068000214 metal binding site [ion binding]; metal-binding site 1111068000215 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 1111068000216 homodimer interface [polypeptide binding]; other site 1111068000217 active site 1111068000218 putative chemical substrate binding site [chemical binding]; other site 1111068000219 metal binding site [ion binding]; metal-binding site 1111068000220 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 1111068000221 RNA binding surface [nucleotide binding]; other site 1111068000222 sporulation protein YabP; Region: spore_yabP; TIGR02892 1111068000223 spore cortex biosynthesis protein YabQ; Region: spore_yabQ; TIGR02893 1111068000224 Septum formation initiator; Region: DivIC; pfam04977 1111068000225 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1111068000226 hypothetical protein; Provisional; Region: PRK08582 1111068000227 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 1111068000228 RNA binding site [nucleotide binding]; other site 1111068000229 stage II sporulation protein E; Region: spore_II_E; TIGR02865 1111068000230 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 1111068000231 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1111068000232 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 1111068000233 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 1111068000234 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 1111068000235 metal ion-dependent adhesion site (MIDAS); other site 1111068000236 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1111068000237 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1111068000238 active site 1111068000239 ATP binding site [chemical binding]; other site 1111068000240 substrate binding site [chemical binding]; other site 1111068000241 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1111068000242 active site 1111068000243 ATP binding site [chemical binding]; other site 1111068000244 substrate binding site [chemical binding]; other site 1111068000245 activation loop (A-loop); other site 1111068000246 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1111068000247 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 1111068000248 Ligand Binding Site [chemical binding]; other site 1111068000249 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1111068000250 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1111068000251 active site 1111068000252 FtsH Extracellular; Region: FtsH_ext; pfam06480 1111068000253 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1111068000254 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 1111068000255 Walker A motif; other site 1111068000256 ATP binding site [chemical binding]; other site 1111068000257 Walker B motif; other site 1111068000258 arginine finger; other site 1111068000259 Peptidase family M41; Region: Peptidase_M41; pfam01434 1111068000260 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1111068000261 nucleotide binding site [chemical binding]; other site 1111068000262 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1111068000263 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 1111068000264 dimerization interface [polypeptide binding]; other site 1111068000265 domain crossover interface; other site 1111068000266 redox-dependent activation switch; other site 1111068000267 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1111068000268 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 1111068000269 dimer interface [polypeptide binding]; other site 1111068000270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068000271 catalytic residue [active] 1111068000272 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1111068000273 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1111068000274 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1111068000275 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1111068000276 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1111068000277 glutamine binding [chemical binding]; other site 1111068000278 catalytic triad [active] 1111068000279 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1111068000280 4-amino-4-deoxychorismate lyase; Provisional; Region: PRK07650 1111068000281 homodimer interface [polypeptide binding]; other site 1111068000282 substrate-cofactor binding pocket; other site 1111068000283 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068000284 catalytic residue [active] 1111068000285 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 1111068000286 dihydropteroate synthase; Region: DHPS; TIGR01496 1111068000287 substrate binding pocket [chemical binding]; other site 1111068000288 dimer interface [polypeptide binding]; other site 1111068000289 inhibitor binding site; inhibition site 1111068000290 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 1111068000291 homooctamer interface [polypeptide binding]; other site 1111068000292 active site 1111068000293 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 1111068000294 catalytic center binding site [active] 1111068000295 ATP binding site [chemical binding]; other site 1111068000296 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 1111068000297 non-specific DNA binding site [nucleotide binding]; other site 1111068000298 salt bridge; other site 1111068000299 sequence-specific DNA binding site [nucleotide binding]; other site 1111068000300 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1111068000301 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 1111068000302 FMN binding site [chemical binding]; other site 1111068000303 active site 1111068000304 catalytic residues [active] 1111068000305 substrate binding site [chemical binding]; other site 1111068000306 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1111068000307 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 1111068000308 dimer interface [polypeptide binding]; other site 1111068000309 putative anticodon binding site; other site 1111068000310 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 1111068000311 motif 1; other site 1111068000312 active site 1111068000313 motif 2; other site 1111068000314 motif 3; other site 1111068000315 potential protein location (hypothetical protein GTCCBUS3UF5_870 [Geobacillus thermoleovorans CCB_US3_UF5]) that overlaps RNA (23S ribosomal RNA) 1111068000316 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 1111068000317 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 1111068000318 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 1111068000319 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 1111068000320 ADP binding site [chemical binding]; other site 1111068000321 phosphagen binding site; other site 1111068000322 substrate specificity loop; other site 1111068000323 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1111068000324 Clp amino terminal domain; Region: Clp_N; pfam02861 1111068000325 Clp amino terminal domain; Region: Clp_N; pfam02861 1111068000326 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 1111068000327 Walker A motif; other site 1111068000328 ATP binding site [chemical binding]; other site 1111068000329 Walker B motif; other site 1111068000330 arginine finger; other site 1111068000331 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 1111068000332 Walker A motif; other site 1111068000333 ATP binding site [chemical binding]; other site 1111068000334 Walker B motif; other site 1111068000335 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1111068000336 DNA repair protein RadA; Provisional; Region: PRK11823 1111068000337 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 1111068000338 Walker A motif/ATP binding site; other site 1111068000339 ATP binding site [chemical binding]; other site 1111068000340 Walker B motif; other site 1111068000341 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1111068000342 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 1111068000343 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 1111068000344 putative active site [active] 1111068000345 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1111068000346 substrate binding site; other site 1111068000347 dimer interface; other site 1111068000348 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 1111068000349 homotrimer interaction site [polypeptide binding]; other site 1111068000350 zinc binding site [ion binding]; other site 1111068000351 CDP-binding sites; other site 1111068000352 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1111068000353 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1111068000354 HIGH motif; other site 1111068000355 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1111068000356 active site 1111068000357 KMSKS motif; other site 1111068000358 serine O-acetyltransferase; Region: cysE; TIGR01172 1111068000359 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1111068000360 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 1111068000361 trimer interface [polypeptide binding]; other site 1111068000362 active site 1111068000363 substrate binding site [chemical binding]; other site 1111068000364 CoA binding site [chemical binding]; other site 1111068000365 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1111068000366 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1111068000367 active site 1111068000368 HIGH motif; other site 1111068000369 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1111068000370 KMSKS motif; other site 1111068000371 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1111068000372 tRNA binding surface [nucleotide binding]; other site 1111068000373 anticodon binding site; other site 1111068000374 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 1111068000375 active site 1111068000376 metal binding site [ion binding]; metal-binding site 1111068000377 dimerization interface [polypeptide binding]; other site 1111068000378 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1111068000379 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1111068000380 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1111068000381 YacP-like NYN domain; Region: NYN_YacP; cl01491 1111068000382 RNA polymerase factor sigma-70; Validated; Region: PRK08295 1111068000383 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1111068000384 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1111068000385 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1111068000386 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1111068000387 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1111068000388 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1111068000389 putative homodimer interface [polypeptide binding]; other site 1111068000390 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1111068000391 heterodimer interface [polypeptide binding]; other site 1111068000392 homodimer interface [polypeptide binding]; other site 1111068000393 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1111068000394 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 1111068000395 23S rRNA interface [nucleotide binding]; other site 1111068000396 L7/L12 interface [polypeptide binding]; other site 1111068000397 putative thiostrepton binding site; other site 1111068000398 L25 interface [polypeptide binding]; other site 1111068000399 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 1111068000400 mRNA/rRNA interface [nucleotide binding]; other site 1111068000401 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 1111068000402 23S rRNA interface [nucleotide binding]; other site 1111068000403 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1111068000404 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 1111068000405 core dimer interface [polypeptide binding]; other site 1111068000406 peripheral dimer interface [polypeptide binding]; other site 1111068000407 L10 interface [polypeptide binding]; other site 1111068000408 L11 interface [polypeptide binding]; other site 1111068000409 putative EF-Tu interaction site [polypeptide binding]; other site 1111068000410 putative EF-G interaction site [polypeptide binding]; other site 1111068000411 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1111068000412 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 1111068000413 S-adenosylmethionine binding site [chemical binding]; other site 1111068000414 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1111068000415 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 1111068000416 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1111068000417 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 1111068000418 RPB1 interaction site [polypeptide binding]; other site 1111068000419 RPB10 interaction site [polypeptide binding]; other site 1111068000420 RPB11 interaction site [polypeptide binding]; other site 1111068000421 RPB3 interaction site [polypeptide binding]; other site 1111068000422 RPB12 interaction site [polypeptide binding]; other site 1111068000423 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1111068000424 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1111068000425 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1111068000426 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1111068000427 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1111068000428 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1111068000429 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1111068000430 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1111068000431 G-loop; other site 1111068000432 DNA binding site [nucleotide binding] 1111068000433 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 1111068000434 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 1111068000435 S17 interaction site [polypeptide binding]; other site 1111068000436 S8 interaction site; other site 1111068000437 16S rRNA interaction site [nucleotide binding]; other site 1111068000438 streptomycin interaction site [chemical binding]; other site 1111068000439 23S rRNA interaction site [nucleotide binding]; other site 1111068000440 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1111068000441 30S ribosomal protein S7; Validated; Region: PRK05302 1111068000442 elongation factor G; Reviewed; Region: PRK00007 1111068000443 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1111068000444 G1 box; other site 1111068000445 putative GEF interaction site [polypeptide binding]; other site 1111068000446 GTP/Mg2+ binding site [chemical binding]; other site 1111068000447 Switch I region; other site 1111068000448 G2 box; other site 1111068000449 G3 box; other site 1111068000450 Switch II region; other site 1111068000451 G4 box; other site 1111068000452 G5 box; other site 1111068000453 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 1111068000454 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 1111068000455 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 1111068000456 elongation factor Tu; Reviewed; Region: PRK00049 1111068000457 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1111068000458 G1 box; other site 1111068000459 GEF interaction site [polypeptide binding]; other site 1111068000460 GTP/Mg2+ binding site [chemical binding]; other site 1111068000461 Switch I region; other site 1111068000462 G2 box; other site 1111068000463 G3 box; other site 1111068000464 Switch II region; other site 1111068000465 G4 box; other site 1111068000466 G5 box; other site 1111068000467 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 1111068000468 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 1111068000469 Antibiotic Binding Site [chemical binding]; other site 1111068000470 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1111068000471 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1111068000472 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1111068000473 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1111068000474 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1111068000475 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1111068000476 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1111068000477 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1111068000478 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 1111068000479 putative translocon binding site; other site 1111068000480 protein-rRNA interface [nucleotide binding]; other site 1111068000481 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1111068000482 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 1111068000483 G-X-X-G motif; other site 1111068000484 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1111068000485 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 1111068000486 23S rRNA interface [nucleotide binding]; other site 1111068000487 5S rRNA interface [nucleotide binding]; other site 1111068000488 putative antibiotic binding site [chemical binding]; other site 1111068000489 L25 interface [polypeptide binding]; other site 1111068000490 L27 interface [polypeptide binding]; other site 1111068000491 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 1111068000492 23S rRNA interface [nucleotide binding]; other site 1111068000493 putative translocon interaction site; other site 1111068000494 signal recognition particle (SRP54) interaction site; other site 1111068000495 L23 interface [polypeptide binding]; other site 1111068000496 trigger factor interaction site; other site 1111068000497 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1111068000498 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1111068000499 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1111068000500 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1111068000501 RNA binding site [nucleotide binding]; other site 1111068000502 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1111068000503 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1111068000504 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1111068000505 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1111068000506 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1111068000507 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1111068000508 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1111068000509 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1111068000510 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 1111068000511 5S rRNA interface [nucleotide binding]; other site 1111068000512 L27 interface [polypeptide binding]; other site 1111068000513 23S rRNA interface [nucleotide binding]; other site 1111068000514 L5 interface [polypeptide binding]; other site 1111068000515 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1111068000516 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1111068000517 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1111068000518 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 1111068000519 23S rRNA binding site [nucleotide binding]; other site 1111068000520 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1111068000521 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1111068000522 SecY translocase; Region: SecY; pfam00344 1111068000523 adenylate kinase; Reviewed; Region: adk; PRK00279 1111068000524 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 1111068000525 AMP-binding site [chemical binding]; other site 1111068000526 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1111068000527 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 1111068000528 active site 1111068000529 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 1111068000530 rRNA binding site [nucleotide binding]; other site 1111068000531 predicted 30S ribosome binding site; other site 1111068000532 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1111068000533 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1111068000534 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1111068000535 30S ribosomal protein S11; Validated; Region: PRK05309 1111068000536 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1111068000537 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1111068000538 alphaNTD - beta interaction site [polypeptide binding]; other site 1111068000539 alphaNTD homodimer interface [polypeptide binding]; other site 1111068000540 alphaNTD - beta' interaction site [polypeptide binding]; other site 1111068000541 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1111068000542 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1111068000543 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 1111068000544 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1111068000545 Walker A/P-loop; other site 1111068000546 ATP binding site [chemical binding]; other site 1111068000547 Q-loop/lid; other site 1111068000548 ABC transporter signature motif; other site 1111068000549 Walker B; other site 1111068000550 D-loop; other site 1111068000551 H-loop/switch region; other site 1111068000552 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 1111068000553 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1111068000554 Walker A/P-loop; other site 1111068000555 ATP binding site [chemical binding]; other site 1111068000556 Q-loop/lid; other site 1111068000557 ABC transporter signature motif; other site 1111068000558 Walker B; other site 1111068000559 D-loop; other site 1111068000560 H-loop/switch region; other site 1111068000561 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1111068000562 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1111068000563 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1111068000564 dimerization interface 3.5A [polypeptide binding]; other site 1111068000565 active site 1111068000566 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068000567 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 1111068000568 23S rRNA interface [nucleotide binding]; other site 1111068000569 L3 interface [polypeptide binding]; other site 1111068000570 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1111068000571 Protein of unknown function (DUF2521); Region: DUF2521; pfam10730 1111068000572 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1111068000573 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 1111068000574 active site 1111068000575 Domain of unknown function DUF59; Region: DUF59; cl00941 1111068000576 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1111068000577 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 1111068000578 Walker A motif; other site 1111068000579 KinB-signalling pathway activation in sporulation; Region: KbaA; pfam14089 1111068000580 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1111068000581 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1111068000582 potential protein location (hypothetical protein GTCCBUS3UF5_1630 [Geobacillus thermoleovorans CCB_US3_UF5]) that overlaps RNA (tRNA-A) 1111068000583 Arginase family; Region: Arginase; cd09989 1111068000584 agmatinase; Region: agmatinase; TIGR01230 1111068000585 active site 1111068000586 Mn binding site [ion binding]; other site 1111068000587 oligomer interface [polypeptide binding]; other site 1111068000588 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 1111068000589 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1111068000590 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 1111068000591 DNA binding residues [nucleotide binding] 1111068000592 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1111068000593 Putative zinc-finger; Region: zf-HC2; pfam13490 1111068000594 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1111068000595 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1111068000596 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1111068000597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1111068000598 YbbR-like protein; Region: YbbR; pfam07949 1111068000599 YbbR-like protein; Region: YbbR; pfam07949 1111068000600 YbbR-like protein; Region: YbbR; pfam07949 1111068000601 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1111068000602 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 1111068000603 active site 1111068000604 substrate binding site [chemical binding]; other site 1111068000605 metal binding site [ion binding]; metal-binding site 1111068000606 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1111068000607 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 1111068000608 glutaminase active site [active] 1111068000609 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 1111068000610 dimer interface [polypeptide binding]; other site 1111068000611 active site 1111068000612 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 1111068000613 dimer interface [polypeptide binding]; other site 1111068000614 active site 1111068000615 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1111068000616 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 1111068000617 dimer interface [polypeptide binding]; other site 1111068000618 conserved gate region; other site 1111068000619 putative PBP binding loops; other site 1111068000620 ABC-ATPase subunit interface; other site 1111068000621 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1111068000622 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 1111068000623 dimer interface [polypeptide binding]; other site 1111068000624 conserved gate region; other site 1111068000625 ABC-ATPase subunit interface; other site 1111068000626 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068000627 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068000628 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1111068000629 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1111068000630 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1111068000631 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1111068000632 Winged helix-turn helix; Region: HTH_29; pfam13551 1111068000633 Homeodomain-like domain; Region: HTH_32; pfam13565 1111068000634 Integrase core domain; Region: rve; pfam00665 1111068000635 Integrase core domain; Region: rve_3; pfam13683 1111068000636 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1111068000637 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1111068000638 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 1111068000639 Walker A motif; other site 1111068000640 ATP binding site [chemical binding]; other site 1111068000641 Walker B motif; other site 1111068000642 arginine finger; other site 1111068000643 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1111068000644 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1111068000645 Protein of unknown function (DUF817); Region: DUF817; pfam05675 1111068000646 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1111068000647 active site 1111068000648 PAS fold; Region: PAS; pfam00989 1111068000649 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 1111068000650 putative active site [active] 1111068000651 heme pocket [chemical binding]; other site 1111068000652 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1111068000653 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 1111068000654 Walker A motif; other site 1111068000655 ATP binding site [chemical binding]; other site 1111068000656 Walker B motif; other site 1111068000657 arginine finger; other site 1111068000658 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1111068000659 S-methylmethionine transporter; Provisional; Region: PRK11387 1111068000660 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 1111068000661 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 1111068000662 Glutamate binding site [chemical binding]; other site 1111068000663 homodimer interface [polypeptide binding]; other site 1111068000664 NAD binding site [chemical binding]; other site 1111068000665 catalytic residues [active] 1111068000666 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 1111068000667 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 1111068000668 inhibitor-cofactor binding pocket; inhibition site 1111068000669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068000670 catalytic residue [active] 1111068000671 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1111068000672 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1111068000673 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1111068000674 NAD(P) binding site [chemical binding]; other site 1111068000675 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1111068000676 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1111068000677 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1111068000678 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 1111068000679 dimer interface [polypeptide binding]; other site 1111068000680 putative PBP binding regions; other site 1111068000681 ABC-ATPase subunit interface; other site 1111068000682 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1111068000683 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 1111068000684 ABC-ATPase subunit interface; other site 1111068000685 dimer interface [polypeptide binding]; other site 1111068000686 putative PBP binding regions; other site 1111068000687 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1111068000688 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 1111068000689 putative ligand binding residues [chemical binding]; other site 1111068000690 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1111068000691 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1111068000692 Walker A/P-loop; other site 1111068000693 ATP binding site [chemical binding]; other site 1111068000694 Q-loop/lid; other site 1111068000695 ABC transporter signature motif; other site 1111068000696 Walker B; other site 1111068000697 D-loop; other site 1111068000698 H-loop/switch region; other site 1111068000699 FOG: CBS domain [General function prediction only]; Region: COG0517 1111068000700 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 1111068000701 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1111068000702 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 1111068000703 putative active site [active] 1111068000704 heme pocket [chemical binding]; other site 1111068000705 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 1111068000706 Walker A motif; other site 1111068000707 ATP binding site [chemical binding]; other site 1111068000708 Walker B motif; other site 1111068000709 arginine finger; other site 1111068000710 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1111068000711 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1111068000712 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1111068000713 active site 1111068000714 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 1111068000715 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1111068000716 catalytic residues [active] 1111068000717 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1111068000718 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 1111068000719 active site 1111068000720 metal binding site [ion binding]; metal-binding site 1111068000721 Predicted membrane protein [Function unknown]; Region: COG2259 1111068000722 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1111068000723 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 1111068000724 catalytic residues [active] 1111068000725 DinB family; Region: DinB; cl17821 1111068000726 DinB superfamily; Region: DinB_2; pfam12867 1111068000727 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 1111068000728 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1111068000729 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 1111068000730 THF binding site; other site 1111068000731 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 1111068000732 substrate binding site [chemical binding]; other site 1111068000733 THF binding site; other site 1111068000734 zinc-binding site [ion binding]; other site 1111068000735 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1111068000736 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1111068000737 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1111068000738 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 1111068000739 active site 1111068000740 phosphorylation site [posttranslational modification] 1111068000741 intermolecular recognition site; other site 1111068000742 dimerization interface [polypeptide binding]; other site 1111068000743 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 1111068000744 DNA binding residues [nucleotide binding] 1111068000745 dimerization interface [polypeptide binding]; other site 1111068000746 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1111068000747 Histidine kinase; Region: HisKA_3; pfam07730 1111068000748 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1111068000749 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1111068000750 Walker A/P-loop; other site 1111068000751 ATP binding site [chemical binding]; other site 1111068000752 Q-loop/lid; other site 1111068000753 ABC transporter signature motif; other site 1111068000754 Walker B; other site 1111068000755 D-loop; other site 1111068000756 H-loop/switch region; other site 1111068000757 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1111068000758 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1111068000759 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1111068000760 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1111068000761 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1111068000762 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 1111068000763 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1111068000764 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 1111068000765 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1111068000766 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 1111068000767 active site 1111068000768 catalytic triad [active] 1111068000769 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1111068000770 Sulfatase; Region: Sulfatase; pfam00884 1111068000771 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1111068000772 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1111068000773 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1111068000774 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 1111068000775 Domain of unknown function DUF; Region: DUF204; pfam02659 1111068000776 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 1111068000777 SpoOM protein; Region: Spo0M; pfam07070 1111068000778 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 1111068000779 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1111068000780 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1111068000781 nucleotide binding site [chemical binding]; other site 1111068000782 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1111068000783 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 1111068000784 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 1111068000785 active site 1111068000786 homodimer interface [polypeptide binding]; other site 1111068000787 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1111068000788 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 1111068000789 NodB motif; other site 1111068000790 putative active site [active] 1111068000791 putative catalytic site [active] 1111068000792 putative Zn binding site [ion binding]; other site 1111068000793 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1111068000794 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1111068000795 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 1111068000796 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 1111068000797 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1111068000798 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1111068000799 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1111068000800 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1111068000801 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1111068000802 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1111068000803 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1111068000804 Esterase/lipase [General function prediction only]; Region: COG1647 1111068000805 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1111068000806 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 1111068000807 ATP binding site [chemical binding]; other site 1111068000808 Mg++ binding site [ion binding]; other site 1111068000809 motif III; other site 1111068000810 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 1111068000811 nucleotide binding region [chemical binding]; other site 1111068000812 ATP-binding site [chemical binding]; other site 1111068000813 Rhomboid family; Region: Rhomboid; pfam01694 1111068000814 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1111068000815 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1111068000816 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1111068000817 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1111068000818 active site 1111068000819 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1111068000820 dimer interface [polypeptide binding]; other site 1111068000821 substrate binding site [chemical binding]; other site 1111068000822 catalytic residues [active] 1111068000823 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 1111068000824 PemK-like protein; Region: PemK; pfam02452 1111068000825 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1111068000826 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1111068000827 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1111068000828 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 1111068000829 RNA binding site [nucleotide binding]; other site 1111068000830 SprT homologues; Region: SprT; cl01182 1111068000831 hypothetical protein; Provisional; Region: PRK04351 1111068000832 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1111068000833 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1111068000834 Glycoprotease family; Region: Peptidase_M22; pfam00814 1111068000835 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1111068000836 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068000837 Coenzyme A binding pocket [chemical binding]; other site 1111068000838 UGMP family protein; Validated; Region: PRK09604 1111068000839 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1111068000840 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1111068000841 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1111068000842 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1111068000843 ABC transporter; Region: ABC_tran_2; pfam12848 1111068000844 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1111068000845 ABC transporter; Region: ABC_tran_2; pfam12848 1111068000846 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 1111068000847 trimer interface [polypeptide binding]; other site 1111068000848 dimer interface [polypeptide binding]; other site 1111068000849 putative active site [active] 1111068000850 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1111068000851 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1111068000852 CoA binding domain; Region: CoA_binding; pfam02629 1111068000853 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 1111068000854 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1111068000855 Domain of unknown function (DUF4305); Region: DUF4305; pfam14146 1111068000856 CAAX protease self-immunity; Region: Abi; pfam02517 1111068000857 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 1111068000858 oligomerisation interface [polypeptide binding]; other site 1111068000859 mobile loop; other site 1111068000860 roof hairpin; other site 1111068000861 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1111068000862 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 1111068000863 ring oligomerisation interface [polypeptide binding]; other site 1111068000864 ATP/Mg binding site [chemical binding]; other site 1111068000865 stacking interactions; other site 1111068000866 hinge regions; other site 1111068000867 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1111068000868 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 1111068000869 Int/Topo IB signature motif; other site 1111068000870 TIR domain; Region: TIR_2; pfam13676 1111068000871 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 1111068000872 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 1111068000873 non-specific DNA binding site [nucleotide binding]; other site 1111068000874 salt bridge; other site 1111068000875 sequence-specific DNA binding site [nucleotide binding]; other site 1111068000876 BRO family, N-terminal domain; Region: Bro-N; cl10591 1111068000877 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1111068000878 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 1111068000879 recombination and repair protein RecT; Reviewed; Region: recT; PRK09846 1111068000880 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 1111068000881 putative Zn2+ binding site [ion binding]; other site 1111068000882 putative DNA binding site [nucleotide binding]; other site 1111068000883 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 1111068000884 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 1111068000885 dUTPase; Region: dUTPase_2; pfam08761 1111068000886 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 1111068000887 active site 1111068000888 homodimer interface [polypeptide binding]; other site 1111068000889 metal binding site [ion binding]; metal-binding site 1111068000890 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1111068000891 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1111068000892 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 1111068000893 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1111068000894 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 1111068000895 Helix-turn-helix domain; Region: HTH_17; pfam12728 1111068000896 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1111068000897 DNA protecting protein DprA; Region: dprA; TIGR00732 1111068000898 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1111068000899 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1111068000900 active site 1111068000901 Terminase small subunit; Region: Terminase_2; pfam03592 1111068000902 Phage terminase large subunit; Region: Terminase_3; cl12054 1111068000903 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 1111068000904 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 1111068000905 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1111068000906 Sm and related proteins; Region: Sm_like; cl00259 1111068000907 Sm1 motif; other site 1111068000908 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 1111068000909 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 1111068000910 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 1111068000911 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 1111068000912 Phage XkdN-like protein; Region: XkdN; pfam08890 1111068000913 tape measure domain; Region: tape_meas_nterm; TIGR02675 1111068000914 Phage-related minor tail protein [Function unknown]; Region: COG5281 1111068000915 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068000916 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 1111068000917 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 1111068000918 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 1111068000919 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 1111068000920 Holin family; Region: Phage_holin_4; pfam05105 1111068000921 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1111068000922 amidase catalytic site [active] 1111068000923 Zn binding residues [ion binding]; other site 1111068000924 substrate binding site [chemical binding]; other site 1111068000925 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1111068000926 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068000927 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1111068000928 Probable transposase; Region: OrfB_IS605; pfam01385 1111068000929 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068000930 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1111068000931 Class II fumarases; Region: Fumarase_classII; cd01362 1111068000932 active site 1111068000933 tetramer interface [polypeptide binding]; other site 1111068000934 MoxR-like ATPases [General function prediction only]; Region: COG0714 1111068000935 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 1111068000936 Walker A motif; other site 1111068000937 ATP binding site [chemical binding]; other site 1111068000938 Walker B motif; other site 1111068000939 arginine finger; other site 1111068000940 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1111068000941 Protein of unknown function DUF58; Region: DUF58; pfam01882 1111068000942 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1111068000943 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1111068000944 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 1111068000945 GMP synthase; Reviewed; Region: guaA; PRK00074 1111068000946 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1111068000947 AMP/PPi binding site [chemical binding]; other site 1111068000948 candidate oxyanion hole; other site 1111068000949 catalytic triad [active] 1111068000950 potential glutamine specificity residues [chemical binding]; other site 1111068000951 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 1111068000952 ATP Binding subdomain [chemical binding]; other site 1111068000953 Ligand Binding sites [chemical binding]; other site 1111068000954 Dimerization subdomain; other site 1111068000955 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1111068000956 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1111068000957 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1111068000958 potential protein location (hypothetical protein GTCCBUS3UF5_3420 [Geobacillus thermoleovorans CCB_US3_UF5]) that overlaps RNA (23S ribosomal RNA) 1111068000959 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1111068000960 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 1111068000961 putative dimer interface [polypeptide binding]; other site 1111068000962 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1111068000963 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1111068000964 ATP-grasp domain; Region: ATP-grasp; pfam02222 1111068000965 adenylosuccinate lyase; Provisional; Region: PRK07492 1111068000966 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1111068000967 tetramer interface [polypeptide binding]; other site 1111068000968 active site 1111068000969 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1111068000970 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1111068000971 ATP binding site [chemical binding]; other site 1111068000972 active site 1111068000973 substrate binding site [chemical binding]; other site 1111068000974 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1111068000975 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1111068000976 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1111068000977 putative active site [active] 1111068000978 catalytic triad [active] 1111068000979 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1111068000980 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 1111068000981 dimerization interface [polypeptide binding]; other site 1111068000982 ATP binding site [chemical binding]; other site 1111068000983 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 1111068000984 dimerization interface [polypeptide binding]; other site 1111068000985 ATP binding site [chemical binding]; other site 1111068000986 amidophosphoribosyltransferase; Provisional; Region: PRK07631 1111068000987 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 1111068000988 active site 1111068000989 tetramer interface [polypeptide binding]; other site 1111068000990 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1111068000991 active site 1111068000992 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1111068000993 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 1111068000994 dimerization interface [polypeptide binding]; other site 1111068000995 putative ATP binding site [chemical binding]; other site 1111068000996 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1111068000997 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1111068000998 active site 1111068000999 substrate binding site [chemical binding]; other site 1111068001000 cosubstrate binding site; other site 1111068001001 catalytic site [active] 1111068001002 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1111068001003 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 1111068001004 purine monophosphate binding site [chemical binding]; other site 1111068001005 dimer interface [polypeptide binding]; other site 1111068001006 putative catalytic residues [active] 1111068001007 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1111068001008 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1111068001009 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1111068001010 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1111068001011 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1111068001012 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1111068001013 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1111068001014 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1111068001015 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 1111068001016 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 1111068001017 active site 1111068001018 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1111068001019 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 1111068001020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4496 1111068001021 PcrB family; Region: PcrB; pfam01884 1111068001022 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 1111068001023 substrate binding site [chemical binding]; other site 1111068001024 putative active site [active] 1111068001025 dimer interface [polypeptide binding]; other site 1111068001026 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1111068001027 Part of AAA domain; Region: AAA_19; pfam13245 1111068001028 AAA domain; Region: AAA_12; pfam13087 1111068001029 Family description; Region: UvrD_C_2; pfam13538 1111068001030 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1111068001031 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 1111068001032 nucleotide binding pocket [chemical binding]; other site 1111068001033 K-X-D-G motif; other site 1111068001034 catalytic site [active] 1111068001035 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1111068001036 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1111068001037 Helix-hairpin-helix motif; Region: HHH; pfam00633 1111068001038 helix-hairpin-helix signature motif; other site 1111068001039 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 1111068001040 Dimer interface [polypeptide binding]; other site 1111068001041 Protein involved in sex pheromone biosynthesis [General function prediction only]; Region: CamS; COG4851 1111068001042 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 1111068001043 putative dimer interface [polypeptide binding]; other site 1111068001044 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 1111068001045 putative dimer interface [polypeptide binding]; other site 1111068001046 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1111068001047 Probable transposase; Region: OrfB_IS605; pfam01385 1111068001048 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1111068001049 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1111068001050 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1111068001051 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1111068001052 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1111068001053 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1111068001054 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1111068001055 GatB domain; Region: GatB_Yqey; pfam02637 1111068001056 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08248 1111068001057 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 1111068001058 homodimer interface [polypeptide binding]; other site 1111068001059 substrate-cofactor binding pocket; other site 1111068001060 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068001061 catalytic residue [active] 1111068001062 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1111068001063 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1111068001064 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068001065 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068001066 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068001067 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1111068001068 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1111068001069 Walker A/P-loop; other site 1111068001070 ATP binding site [chemical binding]; other site 1111068001071 Q-loop/lid; other site 1111068001072 ABC transporter signature motif; other site 1111068001073 Walker B; other site 1111068001074 D-loop; other site 1111068001075 H-loop/switch region; other site 1111068001076 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068001077 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1111068001078 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 1111068001079 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 1111068001080 thiopeptide-type bacteriocin biosynthesis domain; Region: thiopep_ocin; TIGR03891 1111068001081 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1111068001082 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1111068001083 MULE transposase domain; Region: MULE; pfam10551 1111068001084 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1111068001085 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1111068001086 Walker A/P-loop; other site 1111068001087 ATP binding site [chemical binding]; other site 1111068001088 Q-loop/lid; other site 1111068001089 ABC transporter signature motif; other site 1111068001090 Walker B; other site 1111068001091 D-loop; other site 1111068001092 H-loop/switch region; other site 1111068001093 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 1111068001094 LanC is the cyclase enzyme of the lanthionine synthetase. Lanthinoine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as precursor peptides and then post-translationally modified to contain thioether cross-links...; Region: LanC; cd04793 1111068001095 active site 1111068001096 zinc binding site [ion binding]; other site 1111068001097 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1111068001098 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 1111068001099 active site 1111068001100 phosphorylation site [posttranslational modification] 1111068001101 intermolecular recognition site; other site 1111068001102 dimerization interface [polypeptide binding]; other site 1111068001103 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 1111068001104 DNA binding site [nucleotide binding] 1111068001105 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1111068001106 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 1111068001107 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 1111068001108 dimer interface [polypeptide binding]; other site 1111068001109 phosphorylation site [posttranslational modification] 1111068001110 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 1111068001111 ATP binding site [chemical binding]; other site 1111068001112 Mg2+ binding site [ion binding]; other site 1111068001113 G-X-G motif; other site 1111068001114 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1111068001115 MULE transposase domain; Region: MULE; pfam10551 1111068001116 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 1111068001117 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1111068001118 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 1111068001119 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1111068001120 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1111068001121 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 1111068001122 Walker A/P-loop; other site 1111068001123 ATP binding site [chemical binding]; other site 1111068001124 Q-loop/lid; other site 1111068001125 ABC transporter signature motif; other site 1111068001126 Walker B; other site 1111068001127 D-loop; other site 1111068001128 H-loop/switch region; other site 1111068001129 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1111068001130 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 1111068001131 ABC-ATPase subunit interface; other site 1111068001132 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1111068001133 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 1111068001134 Walker A/P-loop; other site 1111068001135 ATP binding site [chemical binding]; other site 1111068001136 Q-loop/lid; other site 1111068001137 ABC transporter signature motif; other site 1111068001138 Walker B; other site 1111068001139 D-loop; other site 1111068001140 H-loop/switch region; other site 1111068001141 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 1111068001142 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1111068001143 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1111068001144 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068001145 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068001146 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1111068001147 TIGR02677 family protein; Region: TIGR02677 1111068001148 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 1111068001149 TIGR02678 family protein; Region: TIGR02678 1111068001150 TIGR02680 family protein; Region: TIGR02680 1111068001151 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1111068001152 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1111068001153 TIGR02679 family protein; Region: TIGR02679 1111068001154 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 1111068001155 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1111068001156 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 1111068001157 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 1111068001158 drug efflux system protein MdtG; Provisional; Region: PRK09874 1111068001159 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 1111068001160 putative substrate translocation pore; other site 1111068001161 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1111068001162 Predicted membrane protein [Function unknown]; Region: COG1511 1111068001163 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1111068001164 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1111068001165 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1111068001166 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1111068001167 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 1111068001168 dimer interface [polypeptide binding]; other site 1111068001169 phosphorylation site [posttranslational modification] 1111068001170 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 1111068001171 ATP binding site [chemical binding]; other site 1111068001172 Mg2+ binding site [ion binding]; other site 1111068001173 G-X-G motif; other site 1111068001174 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1111068001175 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 1111068001176 active site 1111068001177 phosphorylation site [posttranslational modification] 1111068001178 intermolecular recognition site; other site 1111068001179 dimerization interface [polypeptide binding]; other site 1111068001180 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 1111068001181 DNA binding site [nucleotide binding] 1111068001182 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1111068001183 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1111068001184 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 1111068001185 protein binding site [polypeptide binding]; other site 1111068001186 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1111068001187 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068001188 Uncharacterized distant relative of cell wall-associated hydrolases [Function unknown]; Region: COG3863 1111068001189 Protein of unknown function (DUF962); Region: DUF962; pfam06127 1111068001190 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 1111068001191 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1111068001192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1111068001193 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 1111068001194 putative lipid kinase; Reviewed; Region: PRK13337 1111068001195 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1111068001196 TRAM domain; Region: TRAM; pfam01938 1111068001197 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 1111068001198 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 1111068001199 S-adenosylmethionine binding site [chemical binding]; other site 1111068001200 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1111068001201 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1111068001202 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1111068001203 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1111068001204 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1111068001205 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1111068001206 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 1111068001207 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1111068001208 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1111068001209 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 1111068001210 ATP binding site [chemical binding]; other site 1111068001211 putative Mg++ binding site [ion binding]; other site 1111068001212 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1111068001213 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 1111068001214 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1111068001215 Winged helix-turn helix; Region: HTH_29; pfam13551 1111068001216 Homeodomain-like domain; Region: HTH_32; pfam13565 1111068001217 Integrase core domain; Region: rve; pfam00665 1111068001218 Integrase core domain; Region: rve_3; pfam13683 1111068001219 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1111068001220 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1111068001221 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 1111068001222 Walker A motif; other site 1111068001223 ATP binding site [chemical binding]; other site 1111068001224 Walker B motif; other site 1111068001225 arginine finger; other site 1111068001226 Period protein 2/3C-terminal region; Region: Period_C; pfam12114 1111068001227 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 1111068001228 dimerization interface [polypeptide binding]; other site 1111068001229 putative DNA binding site [nucleotide binding]; other site 1111068001230 putative Zn2+ binding site [ion binding]; other site 1111068001231 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1111068001232 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 1111068001233 metal-binding site [ion binding] 1111068001234 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1111068001235 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1111068001236 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068001237 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1111068001238 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 1111068001239 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1111068001240 putative active site [active] 1111068001241 putative NTP binding site [chemical binding]; other site 1111068001242 putative nucleic acid binding site [nucleotide binding]; other site 1111068001243 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1111068001244 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1111068001245 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1111068001246 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1111068001247 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1111068001248 NADP binding site [chemical binding]; other site 1111068001249 Predicted transcriptional regulator [Transcription]; Region: COG1959 1111068001250 Transcriptional regulator; Region: Rrf2; pfam02082 1111068001251 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1111068001252 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 1111068001253 S-adenosylmethionine binding site [chemical binding]; other site 1111068001254 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 1111068001255 SpoOM protein; Region: Spo0M; pfam07070 1111068001256 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1111068001257 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1111068001258 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1111068001259 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 1111068001260 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1111068001261 active site 1111068001262 Substrate binding site; other site 1111068001263 Mg++ binding site; other site 1111068001264 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 1111068001265 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 1111068001266 putative trimer interface [polypeptide binding]; other site 1111068001267 putative CoA binding site [chemical binding]; other site 1111068001268 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1111068001269 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 1111068001270 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 1111068001271 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1111068001272 active site 1111068001273 substrate binding site [chemical binding]; other site 1111068001274 metal binding site [ion binding]; metal-binding site 1111068001275 Sensory domain found in PocR; Region: PocR; pfam10114 1111068001276 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1111068001277 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1111068001278 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 1111068001279 DNA binding residues [nucleotide binding] 1111068001280 dimerization interface [polypeptide binding]; other site 1111068001281 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1111068001282 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1111068001283 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 1111068001284 anti sigma factor interaction site; other site 1111068001285 regulatory phosphorylation site [posttranslational modification]; other site 1111068001286 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 1111068001287 PAS fold; Region: PAS_3; pfam08447 1111068001288 putative active site [active] 1111068001289 heme pocket [chemical binding]; other site 1111068001290 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 1111068001291 PAS domain; Region: PAS_9; pfam13426 1111068001292 putative active site [active] 1111068001293 heme pocket [chemical binding]; other site 1111068001294 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1111068001295 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1111068001296 RDD family; Region: RDD; pfam06271 1111068001297 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 1111068001298 dimerization interface [polypeptide binding]; other site 1111068001299 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1111068001300 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1111068001301 dimer interface [polypeptide binding]; other site 1111068001302 putative CheW interface [polypeptide binding]; other site 1111068001303 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1111068001304 ThiC-associated domain; Region: ThiC-associated; pfam13667 1111068001305 ThiC family; Region: ThiC; pfam01964 1111068001306 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1111068001307 Probable transposase; Region: OrfB_IS605; pfam01385 1111068001308 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068001309 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 1111068001310 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 1111068001311 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068001312 homodimer interface [polypeptide binding]; other site 1111068001313 catalytic residue [active] 1111068001314 thiamine pyrophosphate protein; Validated; Region: PRK08199 1111068001315 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1111068001316 PYR/PP interface [polypeptide binding]; other site 1111068001317 dimer interface [polypeptide binding]; other site 1111068001318 TPP binding site [chemical binding]; other site 1111068001319 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1111068001320 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1111068001321 TPP-binding site [chemical binding]; other site 1111068001322 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1111068001323 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1111068001324 NAD(P) binding site [chemical binding]; other site 1111068001325 catalytic residues [active] 1111068001326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1111068001327 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 1111068001328 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1111068001329 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 1111068001330 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1111068001331 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1111068001332 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1111068001333 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1111068001334 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1111068001335 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1111068001336 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1111068001337 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1111068001338 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1111068001339 Ligand binding site; other site 1111068001340 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1111068001341 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1111068001342 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 1111068001343 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1111068001344 [4Fe-4S] binding site [ion binding]; other site 1111068001345 molybdopterin cofactor binding site; other site 1111068001346 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 1111068001347 molybdopterin cofactor binding site; other site 1111068001348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 1111068001349 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1111068001350 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 1111068001351 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cl07944 1111068001352 RNA binding site [nucleotide binding]; other site 1111068001353 hexamer interface [polypeptide binding]; other site 1111068001354 Histidine-zinc binding site [chemical binding]; other site 1111068001355 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1111068001356 active sites [active] 1111068001357 tetramer interface [polypeptide binding]; other site 1111068001358 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1111068001359 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1111068001360 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1111068001361 NAD binding site [chemical binding]; other site 1111068001362 ligand binding site [chemical binding]; other site 1111068001363 catalytic site [active] 1111068001364 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1111068001365 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1111068001366 Putative amidase domain; Region: Amidase_6; pfam12671 1111068001367 Integrase core domain; Region: rve_3; cl15866 1111068001368 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1111068001369 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1111068001370 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1111068001371 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1111068001372 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 1111068001373 Cysteine-rich domain; Region: CCG; pfam02754 1111068001374 Cysteine-rich domain; Region: CCG; pfam02754 1111068001375 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1111068001376 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1111068001377 DNA-binding site [nucleotide binding]; DNA binding site 1111068001378 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1111068001379 L-lactate permease; Region: Lactate_perm; cl00701 1111068001380 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1111068001381 rod shape-determining protein MreB; Provisional; Region: PRK13930 1111068001382 MreB and similar proteins; Region: MreB_like; cd10225 1111068001383 nucleotide binding site [chemical binding]; other site 1111068001384 Mg binding site [ion binding]; other site 1111068001385 putative protofilament interaction site [polypeptide binding]; other site 1111068001386 RodZ interaction site [polypeptide binding]; other site 1111068001387 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1111068001388 NlpC/P60 family; Region: NLPC_P60; pfam00877 1111068001389 PAS domain S-box; Region: sensory_box; TIGR00229 1111068001390 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 1111068001391 putative active site [active] 1111068001392 heme pocket [chemical binding]; other site 1111068001393 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1111068001394 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1111068001395 metal binding site [ion binding]; metal-binding site 1111068001396 active site 1111068001397 I-site; other site 1111068001398 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 1111068001399 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 1111068001400 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 1111068001401 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1111068001402 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 1111068001403 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1111068001404 bacillithiol biosynthesis deacetylase BshB2; Region: thiol_BshB2; TIGR04000 1111068001405 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 1111068001406 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 1111068001407 active site 1111068001408 metal binding site [ion binding]; metal-binding site 1111068001409 acylphosphatase; Provisional; Region: PRK14420 1111068001410 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 1111068001411 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 1111068001412 putative active site [active] 1111068001413 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 1111068001414 putative active site [active] 1111068001415 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1111068001416 active site 1111068001417 SAM binding site [chemical binding]; other site 1111068001418 homodimer interface [polypeptide binding]; other site 1111068001419 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 1111068001420 ligand-binding site [chemical binding]; other site 1111068001421 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 1111068001422 ATP-sulfurylase; Region: ATPS; cd00517 1111068001423 active site 1111068001424 HXXH motif; other site 1111068001425 flexible loop; other site 1111068001426 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1111068001427 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 1111068001428 Active Sites [active] 1111068001429 Protein of unknown function (DUF1128); Region: DUF1128; pfam06569 1111068001430 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1111068001431 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1111068001432 active site 1111068001433 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1111068001434 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 1111068001435 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1111068001436 putative substrate translocation pore; other site 1111068001437 calcium/proton exchanger (cax); Region: cax; TIGR00378 1111068001438 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1111068001439 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1111068001440 YfkD-like protein; Region: YfkD; pfam14167 1111068001441 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1111068001442 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 1111068001443 FeS/SAM binding site; other site 1111068001444 YfkB-like domain; Region: YfkB; pfam08756 1111068001445 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1111068001446 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1111068001447 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 1111068001448 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 1111068001449 NodB motif; other site 1111068001450 active site 1111068001451 catalytic site [active] 1111068001452 Cd binding site [ion binding]; other site 1111068001453 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1111068001454 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1111068001455 minor groove reading motif; other site 1111068001456 helix-hairpin-helix signature motif; other site 1111068001457 substrate binding pocket [chemical binding]; other site 1111068001458 active site 1111068001459 TRAM domain; Region: TRAM; pfam01938 1111068001460 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 1111068001461 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 1111068001462 S-adenosylmethionine binding site [chemical binding]; other site 1111068001463 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1111068001464 Predicted membrane protein [Function unknown]; Region: COG4758 1111068001465 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1111068001466 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1111068001467 Histidine kinase; Region: HisKA_3; pfam07730 1111068001468 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 1111068001469 ATP binding site [chemical binding]; other site 1111068001470 Mg2+ binding site [ion binding]; other site 1111068001471 G-X-G motif; other site 1111068001472 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1111068001473 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 1111068001474 active site 1111068001475 phosphorylation site [posttranslational modification] 1111068001476 intermolecular recognition site; other site 1111068001477 dimerization interface [polypeptide binding]; other site 1111068001478 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 1111068001479 DNA binding residues [nucleotide binding] 1111068001480 dimerization interface [polypeptide binding]; other site 1111068001481 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1111068001482 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1111068001483 hypothetical protein; Validated; Region: PRK00029 1111068001484 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1111068001485 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1111068001486 DNA binding residues [nucleotide binding] 1111068001487 dimer interface [polypeptide binding]; other site 1111068001488 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1111068001489 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 1111068001490 Uncharacterized conserved protein (DUF2294); Region: DUF2294; pfam10057 1111068001491 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 1111068001492 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1111068001493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 1111068001494 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 1111068001495 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 1111068001496 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1111068001497 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1111068001498 active site 1111068001499 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1111068001500 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1111068001501 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1111068001502 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1111068001503 Ligand binding site; other site 1111068001504 metal-binding site 1111068001505 YfhD-like protein; Region: YfhD; pfam14151 1111068001506 YfhE-like protein; Region: YfhE; pfam14152 1111068001507 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1111068001508 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1111068001509 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1111068001510 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1111068001511 putative NAD(P) binding site [chemical binding]; other site 1111068001512 putative active site [active] 1111068001513 recombination regulator RecX; Provisional; Region: recX; PRK14135 1111068001514 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 1111068001515 YpzG-like protein; Region: YpzG; pfam14139 1111068001516 acid-soluble spore protein K; Provisional; Region: sspK; PRK03081 1111068001517 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1111068001518 Uncharacterized conserved protein [Function unknown]; Region: COG2427 1111068001519 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1111068001520 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1111068001521 catalytic loop [active] 1111068001522 iron binding site [ion binding]; other site 1111068001523 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1111068001524 4Fe-4S binding domain; Region: Fer4; pfam00037 1111068001525 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 1111068001526 [4Fe-4S] binding site [ion binding]; other site 1111068001527 molybdopterin cofactor binding site; other site 1111068001528 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1111068001529 molybdopterin cofactor binding site; other site 1111068001530 Uncharacterized conserved protein (DUF2294); Region: DUF2294; pfam10057 1111068001531 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1111068001532 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1111068001533 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 1111068001534 putative substrate translocation pore; other site 1111068001535 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1111068001536 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1111068001537 minor groove reading motif; other site 1111068001538 helix-hairpin-helix signature motif; other site 1111068001539 substrate binding pocket [chemical binding]; other site 1111068001540 active site 1111068001541 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1111068001542 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 1111068001543 DNA binding and oxoG recognition site [nucleotide binding] 1111068001544 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 1111068001545 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 1111068001546 putative NAD(P) binding site [chemical binding]; other site 1111068001547 active site 1111068001548 YgaB-like protein; Region: YgaB; pfam14182 1111068001549 hypothetical protein; Provisional; Region: PRK13662 1111068001550 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1111068001551 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 1111068001552 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1111068001553 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 1111068001554 dimer interface [polypeptide binding]; other site 1111068001555 conserved gate region; other site 1111068001556 putative PBP binding loops; other site 1111068001557 ABC-ATPase subunit interface; other site 1111068001558 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1111068001559 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1111068001560 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 1111068001561 dimer interface [polypeptide binding]; other site 1111068001562 conserved gate region; other site 1111068001563 ABC-ATPase subunit interface; other site 1111068001564 Predicted membrane protein [Function unknown]; Region: COG4129 1111068001565 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 1111068001566 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 1111068001567 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 1111068001568 inhibitor-cofactor binding pocket; inhibition site 1111068001569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068001570 catalytic residue [active] 1111068001571 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 1111068001572 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 1111068001573 Walker A/P-loop; other site 1111068001574 ATP binding site [chemical binding]; other site 1111068001575 Q-loop/lid; other site 1111068001576 ABC transporter signature motif; other site 1111068001577 Walker B; other site 1111068001578 D-loop; other site 1111068001579 H-loop/switch region; other site 1111068001580 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1111068001581 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1111068001582 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1111068001583 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1111068001584 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1111068001585 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1111068001586 NAD binding site [chemical binding]; other site 1111068001587 dimer interface [polypeptide binding]; other site 1111068001588 substrate binding site [chemical binding]; other site 1111068001589 Ion channel; Region: Ion_trans_2; pfam07885 1111068001590 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1111068001591 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 1111068001592 catalytic triad [active] 1111068001593 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1111068001594 metal binding site 2 [ion binding]; metal-binding site 1111068001595 putative DNA binding helix; other site 1111068001596 metal binding site 1 [ion binding]; metal-binding site 1111068001597 dimer interface [polypeptide binding]; other site 1111068001598 structural Zn2+ binding site [ion binding]; other site 1111068001599 Protein of unknown function (DUF2614); Region: DUF2614; pfam11023 1111068001600 potential protein location (hypothetical protein GTCCBUS3UF5_6030 [Geobacillus thermoleovorans CCB_US3_UF5]) that overlaps RNA (23S ribosomal RNA) 1111068001601 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1111068001602 B3/4 domain; Region: B3_4; pfam03483 1111068001603 epoxyqueuosine reductase; Region: TIGR00276 1111068001604 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1111068001605 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500 1111068001606 protein binding surface [polypeptide binding]; other site 1111068001607 Putative amidase domain; Region: Amidase_6; pfam12671 1111068001608 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1111068001609 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 1111068001610 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1111068001611 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 1111068001612 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1111068001613 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1111068001614 DNA binding site [nucleotide binding] 1111068001615 domain linker motif; other site 1111068001616 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 1111068001617 putative ligand binding site [chemical binding]; other site 1111068001618 putative dimerization interface [polypeptide binding]; other site 1111068001619 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1111068001620 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 1111068001621 active site 1111068001622 phosphorylation site [posttranslational modification] 1111068001623 intermolecular recognition site; other site 1111068001624 dimerization interface [polypeptide binding]; other site 1111068001625 HTH domain; Region: HTH_11; pfam08279 1111068001626 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1111068001627 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 1111068001628 putative active site [active] 1111068001629 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 1111068001630 ATP binding site [chemical binding]; other site 1111068001631 Mg2+ binding site [ion binding]; other site 1111068001632 G-X-G motif; other site 1111068001633 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1111068001634 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1111068001635 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1111068001636 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1111068001637 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 1111068001638 active site 1111068001639 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1111068001640 catalytic tetrad [active] 1111068001641 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 1111068001642 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1111068001643 Domain of unknown function DUF21; Region: DUF21; pfam01595 1111068001644 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 1111068001645 Transporter associated domain; Region: CorC_HlyC; smart01091 1111068001646 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1111068001647 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1111068001648 active site 1111068001649 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1111068001650 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 1111068001651 catalytic residues [active] 1111068001652 putative disulfide oxidoreductase; Provisional; Region: PRK03113 1111068001653 FOG: CBS domain [General function prediction only]; Region: COG0517 1111068001654 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 1111068001655 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1111068001656 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 1111068001657 active site 1111068001658 substrate binding site [chemical binding]; other site 1111068001659 metal binding site [ion binding]; metal-binding site 1111068001660 YhdB-like protein; Region: YhdB; pfam14148 1111068001661 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1111068001662 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1111068001663 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1111068001664 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1111068001665 Divergent AAA domain; Region: AAA_4; pfam04326 1111068001666 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1111068001667 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1111068001668 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1111068001669 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 1111068001670 dimerization interface [polypeptide binding]; other site 1111068001671 putative DNA binding site [nucleotide binding]; other site 1111068001672 putative Zn2+ binding site [ion binding]; other site 1111068001673 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1111068001674 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1111068001675 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1111068001676 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1111068001677 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 1111068001678 manganese transport protein MntH; Reviewed; Region: PRK00701 1111068001679 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1111068001680 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 1111068001681 dimerization interface [polypeptide binding]; other site 1111068001682 putative DNA binding site [nucleotide binding]; other site 1111068001683 putative Zn2+ binding site [ion binding]; other site 1111068001684 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1111068001685 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 1111068001686 metal-binding site [ion binding] 1111068001687 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1111068001688 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1111068001689 Helix-turn-helix domain; Region: HTH_17; pfam12728 1111068001690 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1111068001691 MULE transposase domain; Region: MULE; pfam10551 1111068001692 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068001693 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068001694 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1111068001695 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 1111068001696 dimerization interface [polypeptide binding]; other site 1111068001697 putative DNA binding site [nucleotide binding]; other site 1111068001698 putative Zn2+ binding site [ion binding]; other site 1111068001699 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1111068001700 arsenical-resistance protein; Region: acr3; TIGR00832 1111068001701 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1111068001702 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1111068001703 active site 1111068001704 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1111068001705 MarR family; Region: MarR_2; pfam12802 1111068001706 Predicted permease; Region: DUF318; cl17795 1111068001707 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068001708 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068001709 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068001710 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1111068001711 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 1111068001712 S-adenosylmethionine binding site [chemical binding]; other site 1111068001713 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1111068001714 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1111068001715 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1111068001716 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068001717 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1111068001718 DHH family; Region: DHH; pfam01368 1111068001719 DHHA1 domain; Region: DHHA1; pfam02272 1111068001720 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068001721 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068001722 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068001723 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1111068001724 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 1111068001725 catalytic residues [active] 1111068001726 catalytic nucleophile [active] 1111068001727 Presynaptic Site I dimer interface [polypeptide binding]; other site 1111068001728 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1111068001729 Synaptic Flat tetramer interface [polypeptide binding]; other site 1111068001730 Recombinase; Region: Recombinase; pfam07508 1111068001731 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1111068001732 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 1111068001733 non-specific DNA binding site [nucleotide binding]; other site 1111068001734 salt bridge; other site 1111068001735 sequence-specific DNA binding site [nucleotide binding]; other site 1111068001736 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1111068001737 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 1111068001738 catalytic residues [active] 1111068001739 catalytic nucleophile [active] 1111068001740 Recombinase; Region: Recombinase; pfam07508 1111068001741 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1111068001742 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1111068001743 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 1111068001744 catalytic residues [active] 1111068001745 catalytic nucleophile [active] 1111068001746 Recombinase; Region: Recombinase; pfam07508 1111068001747 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1111068001748 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1111068001749 MULE transposase domain; Region: MULE; pfam10551 1111068001750 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1111068001751 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1111068001752 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 1111068001753 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1111068001754 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1111068001755 carbon starvation protein A; Provisional; Region: PRK15015 1111068001756 Carbon starvation protein CstA; Region: CstA; pfam02554 1111068001757 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1111068001758 Protein of unknown function (DUF466); Region: DUF466; pfam04328 1111068001759 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 1111068001760 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1111068001761 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1111068001762 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1111068001763 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 1111068001764 Ca binding site [ion binding]; other site 1111068001765 active site 1111068001766 catalytic site [active] 1111068001767 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 1111068001768 putative transporter; Provisional; Region: PRK12382 1111068001769 putative substrate translocation pore; other site 1111068001770 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 1111068001771 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1111068001772 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1111068001773 putative RNA binding site [nucleotide binding]; other site 1111068001774 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 1111068001775 S-adenosylmethionine binding site [chemical binding]; other site 1111068001776 Putative transcription activator [Transcription]; Region: TenA; COG0819 1111068001777 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 1111068001778 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1111068001779 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1111068001780 Walker A/P-loop; other site 1111068001781 ATP binding site [chemical binding]; other site 1111068001782 Q-loop/lid; other site 1111068001783 ABC transporter signature motif; other site 1111068001784 Walker B; other site 1111068001785 D-loop; other site 1111068001786 H-loop/switch region; other site 1111068001787 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1111068001788 Walker A/P-loop; other site 1111068001789 ATP binding site [chemical binding]; other site 1111068001790 Q-loop/lid; other site 1111068001791 ABC transporter signature motif; other site 1111068001792 Walker B; other site 1111068001793 D-loop; other site 1111068001794 H-loop/switch region; other site 1111068001795 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1111068001796 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 1111068001797 thiamine phosphate binding site [chemical binding]; other site 1111068001798 active site 1111068001799 pyrophosphate binding site [ion binding]; other site 1111068001800 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1111068001801 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1111068001802 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1111068001803 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1111068001804 thiS-thiF/thiG interaction site; other site 1111068001805 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 1111068001806 ThiS interaction site; other site 1111068001807 putative active site [active] 1111068001808 tetramer interface [polypeptide binding]; other site 1111068001809 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 1111068001810 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 1111068001811 ATP binding site [chemical binding]; other site 1111068001812 substrate interface [chemical binding]; other site 1111068001813 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1111068001814 Domain of unknown function DUF21; Region: DUF21; pfam01595 1111068001815 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 1111068001816 Transporter associated domain; Region: CorC_HlyC; smart01091 1111068001817 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1111068001818 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1111068001819 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1111068001820 Walker A/P-loop; other site 1111068001821 ATP binding site [chemical binding]; other site 1111068001822 Q-loop/lid; other site 1111068001823 ABC transporter signature motif; other site 1111068001824 Walker B; other site 1111068001825 D-loop; other site 1111068001826 H-loop/switch region; other site 1111068001827 TOBE domain; Region: TOBE; pfam03459 1111068001828 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1111068001829 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 1111068001830 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 1111068001831 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 1111068001832 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 1111068001833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1111068001834 hypothetical protein; Provisional; Region: PRK13676 1111068001835 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 1111068001836 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1111068001837 active site 1111068001838 motif I; other site 1111068001839 motif II; other site 1111068001840 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 1111068001841 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 1111068001842 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 1111068001843 FeS/SAM binding site; other site 1111068001844 YhzD-like protein; Region: YhzD; pfam14120 1111068001845 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1111068001846 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 1111068001847 Walker A/P-loop; other site 1111068001848 ATP binding site [chemical binding]; other site 1111068001849 Q-loop/lid; other site 1111068001850 ABC transporter signature motif; other site 1111068001851 Walker B; other site 1111068001852 D-loop; other site 1111068001853 H-loop/switch region; other site 1111068001854 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1111068001855 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1111068001856 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 1111068001857 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 1111068001858 generic binding surface II; other site 1111068001859 generic binding surface I; other site 1111068001860 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1111068001861 Zn2+ binding site [ion binding]; other site 1111068001862 Mg2+ binding site [ion binding]; other site 1111068001863 Sporulation protein YhaL; Region: Spore_YhaL; pfam14147 1111068001864 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 1111068001865 homodimer interface [polypeptide binding]; other site 1111068001866 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1111068001867 substrate-cofactor binding pocket; other site 1111068001868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068001869 catalytic residue [active] 1111068001870 transcriptional regulator Hpr; Provisional; Region: PRK13777 1111068001871 MarR family; Region: MarR; pfam01047 1111068001872 Protein of unknown function (DUF1878); Region: DUF1878; pfam08963 1111068001873 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 1111068001874 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1111068001875 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 1111068001876 HIT family signature motif; other site 1111068001877 catalytic residue [active] 1111068001878 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1111068001879 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1111068001880 Walker A/P-loop; other site 1111068001881 ATP binding site [chemical binding]; other site 1111068001882 Q-loop/lid; other site 1111068001883 ABC transporter signature motif; other site 1111068001884 Walker B; other site 1111068001885 D-loop; other site 1111068001886 H-loop/switch region; other site 1111068001887 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 1111068001888 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 1111068001889 substrate binding site [chemical binding]; other site 1111068001890 active site 1111068001891 ferrochelatase; Provisional; Region: PRK12435 1111068001892 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 1111068001893 C-terminal domain interface [polypeptide binding]; other site 1111068001894 active site 1111068001895 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 1111068001896 active site 1111068001897 N-terminal domain interface [polypeptide binding]; other site 1111068001898 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 1111068001899 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1111068001900 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1111068001901 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1111068001902 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1111068001903 YhfH-like protein; Region: YhfH; pfam14149 1111068001904 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1111068001905 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 1111068001906 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1111068001907 acyl-activating enzyme (AAE) consensus motif; other site 1111068001908 putative AMP binding site [chemical binding]; other site 1111068001909 putative active site [active] 1111068001910 putative CoA binding site [chemical binding]; other site 1111068001911 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1111068001912 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1111068001913 zinc binding site [ion binding]; other site 1111068001914 putative ligand binding site [chemical binding]; other site 1111068001915 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1111068001916 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1111068001917 TM-ABC transporter signature motif; other site 1111068001918 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1111068001919 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1111068001920 Walker A/P-loop; other site 1111068001921 ATP binding site [chemical binding]; other site 1111068001922 Q-loop/lid; other site 1111068001923 ABC transporter signature motif; other site 1111068001924 Walker B; other site 1111068001925 D-loop; other site 1111068001926 H-loop/switch region; other site 1111068001927 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1111068001928 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 1111068001929 homodimer interface [polypeptide binding]; other site 1111068001930 substrate-cofactor binding pocket; other site 1111068001931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068001932 catalytic residue [active] 1111068001933 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1111068001934 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1111068001935 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1111068001936 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 1111068001937 Cu(I) binding site [ion binding]; other site 1111068001938 isocitrate lyase; Provisional; Region: PRK15063 1111068001939 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 1111068001940 tetramer interface [polypeptide binding]; other site 1111068001941 active site 1111068001942 Mg2+/Mn2+ binding site [ion binding]; other site 1111068001943 ComK protein; Region: ComK; pfam06338 1111068001944 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1111068001945 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1111068001946 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1111068001947 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 1111068001948 Catalytic site [active] 1111068001949 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 1111068001950 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1111068001951 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1111068001952 Part of AAA domain; Region: AAA_19; pfam13245 1111068001953 Family description; Region: UvrD_C_2; pfam13538 1111068001954 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1111068001955 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1111068001956 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1111068001957 active site 1111068001958 metal binding site [ion binding]; metal-binding site 1111068001959 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1111068001960 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1111068001961 AAA domain; Region: AAA_23; pfam13476 1111068001962 Walker A/P-loop; other site 1111068001963 ATP binding site [chemical binding]; other site 1111068001964 Q-loop/lid; other site 1111068001965 ABC transporter signature motif; other site 1111068001966 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1111068001967 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1111068001968 ABC transporter signature motif; other site 1111068001969 Walker B; other site 1111068001970 D-loop; other site 1111068001971 H-loop/switch region; other site 1111068001972 Probable transposase; Region: OrfB_IS605; pfam01385 1111068001973 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068001974 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1111068001975 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 1111068001976 Protein of unknown function (DUF2772); Region: DUF2772; pfam10970 1111068001977 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068001978 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068001979 Spore germination protein GerPC; Region: GerPC; pfam10737 1111068001980 Protein of unknown function (DUF2539); Region: DUF2539; pfam10803 1111068001981 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 1111068001982 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 1111068001983 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 1111068001984 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1111068001985 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1111068001986 acyl-activating enzyme (AAE) consensus motif; other site 1111068001987 putative active site [active] 1111068001988 AMP binding site [chemical binding]; other site 1111068001989 putative CoA binding site [chemical binding]; other site 1111068001990 Predicted membrane protein [Function unknown]; Region: COG2311 1111068001991 Protein of unknown function (DUF418); Region: DUF418; cl12135 1111068001992 Protein of unknown function (DUF418); Region: DUF418; pfam04235 1111068001993 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 1111068001994 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 1111068001995 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1111068001996 hypothetical protein; Provisional; Region: PRK13673 1111068001997 FIST N domain; Region: FIST; pfam08495 1111068001998 FIST C domain; Region: FIST_C; pfam10442 1111068001999 PAS domain S-box; Region: sensory_box; TIGR00229 1111068002000 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 1111068002001 putative active site [active] 1111068002002 heme pocket [chemical binding]; other site 1111068002003 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1111068002004 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1111068002005 metal binding site [ion binding]; metal-binding site 1111068002006 active site 1111068002007 I-site; other site 1111068002008 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 1111068002009 Protein of unknown function (DUF2777); Region: DUF2777; pfam10949 1111068002010 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 1111068002011 active site 1111068002012 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1111068002013 dimer interface [polypeptide binding]; other site 1111068002014 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 1111068002015 Ligand Binding Site [chemical binding]; other site 1111068002016 Molecular Tunnel; other site 1111068002017 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 1111068002018 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1111068002019 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1111068002020 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1111068002021 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1111068002022 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 1111068002023 homodimer interface [polypeptide binding]; other site 1111068002024 maltodextrin glucosidase; Provisional; Region: PRK10785 1111068002025 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 1111068002026 active site 1111068002027 homodimer interface [polypeptide binding]; other site 1111068002028 catalytic site [active] 1111068002029 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 1111068002030 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1111068002031 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1111068002032 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1111068002033 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 1111068002034 dimer interface [polypeptide binding]; other site 1111068002035 conserved gate region; other site 1111068002036 putative PBP binding loops; other site 1111068002037 ABC-ATPase subunit interface; other site 1111068002038 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1111068002039 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 1111068002040 dimer interface [polypeptide binding]; other site 1111068002041 conserved gate region; other site 1111068002042 putative PBP binding loops; other site 1111068002043 ABC-ATPase subunit interface; other site 1111068002044 trehalose synthase; Region: treS_nterm; TIGR02456 1111068002045 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 1111068002046 active site 1111068002047 catalytic site [active] 1111068002048 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1111068002049 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1111068002050 DNA binding site [nucleotide binding] 1111068002051 domain linker motif; other site 1111068002052 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 1111068002053 putative dimerization interface [polypeptide binding]; other site 1111068002054 putative ligand binding site [chemical binding]; other site 1111068002055 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1111068002056 Bacterial transcriptional regulator; Region: IclR; pfam01614 1111068002057 PAS domain; Region: PAS; smart00091 1111068002058 putative active site [active] 1111068002059 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 1111068002060 Walker A motif; other site 1111068002061 ATP binding site [chemical binding]; other site 1111068002062 Walker B motif; other site 1111068002063 arginine finger; other site 1111068002064 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1111068002065 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1111068002066 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 1111068002067 tetramer interface [polypeptide binding]; other site 1111068002068 TPP-binding site [chemical binding]; other site 1111068002069 heterodimer interface [polypeptide binding]; other site 1111068002070 phosphorylation loop region [posttranslational modification] 1111068002071 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 1111068002072 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1111068002073 alpha subunit interface [polypeptide binding]; other site 1111068002074 TPP binding site [chemical binding]; other site 1111068002075 heterodimer interface [polypeptide binding]; other site 1111068002076 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1111068002077 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1111068002078 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 1111068002079 E3 interaction surface; other site 1111068002080 lipoyl attachment site [posttranslational modification]; other site 1111068002081 e3 binding domain; Region: E3_binding; pfam02817 1111068002082 e3 binding domain; Region: E3_binding; pfam02817 1111068002083 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1111068002084 short chain dehydrogenase; Provisional; Region: PRK06701 1111068002085 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1111068002086 NAD binding site [chemical binding]; other site 1111068002087 metal binding site [ion binding]; metal-binding site 1111068002088 active site 1111068002089 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1111068002090 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 1111068002091 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 1111068002092 substrate binding pocket [chemical binding]; other site 1111068002093 dimer interface [polypeptide binding]; other site 1111068002094 inhibitor binding site; inhibition site 1111068002095 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 1111068002096 B12 binding site [chemical binding]; other site 1111068002097 cobalt ligand [ion binding]; other site 1111068002098 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1111068002099 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 1111068002100 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1111068002101 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 1111068002102 FAD binding site [chemical binding]; other site 1111068002103 Double zinc ribbon; Region: DZR; pfam12773 1111068002104 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1111068002105 Bacteriocin class IId cyclical uberolysin-like; Region: Bacteriocin_IId; pfam09221 1111068002106 Integral membrane protein DUF95; Region: DUF95; pfam01944 1111068002107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1111068002108 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 1111068002109 Walker A/P-loop; other site 1111068002110 ATP binding site [chemical binding]; other site 1111068002111 Q-loop/lid; other site 1111068002112 ABC transporter signature motif; other site 1111068002113 Walker B; other site 1111068002114 D-loop; other site 1111068002115 H-loop/switch region; other site 1111068002116 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1111068002117 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1111068002118 Walker A/P-loop; other site 1111068002119 ATP binding site [chemical binding]; other site 1111068002120 Q-loop/lid; other site 1111068002121 ABC transporter signature motif; other site 1111068002122 Walker B; other site 1111068002123 D-loop; other site 1111068002124 H-loop/switch region; other site 1111068002125 TOBE domain; Region: TOBE_2; pfam08402 1111068002126 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 1111068002127 dimer interface [polypeptide binding]; other site 1111068002128 conserved gate region; other site 1111068002129 putative PBP binding loops; other site 1111068002130 ABC-ATPase subunit interface; other site 1111068002131 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1111068002132 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 1111068002133 dimer interface [polypeptide binding]; other site 1111068002134 conserved gate region; other site 1111068002135 putative PBP binding loops; other site 1111068002136 ABC-ATPase subunit interface; other site 1111068002137 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1111068002138 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1111068002139 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 1111068002140 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1111068002141 putative active site [active] 1111068002142 metal binding site [ion binding]; metal-binding site 1111068002143 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1111068002144 GAF domain; Region: GAF_3; pfam13492 1111068002145 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1111068002146 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 1111068002147 dimer interface [polypeptide binding]; other site 1111068002148 phosphorylation site [posttranslational modification] 1111068002149 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 1111068002150 ATP binding site [chemical binding]; other site 1111068002151 Mg2+ binding site [ion binding]; other site 1111068002152 G-X-G motif; other site 1111068002153 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1111068002154 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 1111068002155 active site 1111068002156 phosphorylation site [posttranslational modification] 1111068002157 intermolecular recognition site; other site 1111068002158 dimerization interface [polypeptide binding]; other site 1111068002159 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 1111068002160 Walker A motif; other site 1111068002161 ATP binding site [chemical binding]; other site 1111068002162 Walker B motif; other site 1111068002163 arginine finger; other site 1111068002164 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1111068002165 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1111068002166 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1111068002167 NAD(P) binding site [chemical binding]; other site 1111068002168 catalytic residues [active] 1111068002169 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1111068002170 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1111068002171 NAD binding site [chemical binding]; other site 1111068002172 substrate binding site [chemical binding]; other site 1111068002173 catalytic Zn binding site [ion binding]; other site 1111068002174 tetramer interface [polypeptide binding]; other site 1111068002175 structural Zn binding site [ion binding]; other site 1111068002176 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 1111068002177 DinB superfamily; Region: DinB_2; pfam12867 1111068002178 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1111068002179 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1111068002180 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1111068002181 Walker A/P-loop; other site 1111068002182 ATP binding site [chemical binding]; other site 1111068002183 Q-loop/lid; other site 1111068002184 ABC transporter signature motif; other site 1111068002185 Walker B; other site 1111068002186 D-loop; other site 1111068002187 H-loop/switch region; other site 1111068002188 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 1111068002189 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1111068002190 DNA-binding site [nucleotide binding]; DNA binding site 1111068002191 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 1111068002192 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068002193 homodimer interface [polypeptide binding]; other site 1111068002194 catalytic residue [active] 1111068002195 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1111068002196 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1111068002197 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1111068002198 B3/4 domain; Region: B3_4; pfam03483 1111068002199 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1111068002200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1111068002201 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1111068002202 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1111068002203 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1111068002204 DNA-binding site [nucleotide binding]; DNA binding site 1111068002205 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1111068002206 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1111068002207 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1111068002208 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1111068002209 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1111068002210 active site 1111068002211 catalytic residues [active] 1111068002212 metal binding site [ion binding]; metal-binding site 1111068002213 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1111068002214 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1111068002215 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1111068002216 DctM-like transporters; Region: DctM; pfam06808 1111068002217 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1111068002218 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 1111068002219 Fic family protein [Function unknown]; Region: COG3177 1111068002220 Fic/DOC family; Region: Fic; pfam02661 1111068002221 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 1111068002222 EDD domain protein, DegV family; Region: DegV; TIGR00762 1111068002223 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1111068002224 Protein of unknown function (DUF3813); Region: DUF3813; pfam12758 1111068002225 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1111068002226 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 1111068002227 motif II; other site 1111068002228 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 1111068002229 esterase; Provisional; Region: PRK10566 1111068002230 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1111068002231 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 1111068002232 dimerization interface [polypeptide binding]; other site 1111068002233 putative DNA binding site [nucleotide binding]; other site 1111068002234 putative Zn2+ binding site [ion binding]; other site 1111068002235 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1111068002236 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 1111068002237 metal-binding site [ion binding] 1111068002238 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1111068002239 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 1111068002240 motif II; other site 1111068002241 Fic family protein [Function unknown]; Region: COG3177 1111068002242 Fic/DOC family; Region: Fic; pfam02661 1111068002243 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1111068002244 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 1111068002245 CPxP motif; other site 1111068002246 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 1111068002247 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1111068002248 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 1111068002249 ligand binding site [chemical binding]; other site 1111068002250 flexible hinge region; other site 1111068002251 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 1111068002252 non-specific DNA interactions [nucleotide binding]; other site 1111068002253 DNA binding site [nucleotide binding] 1111068002254 sequence specific DNA binding site [nucleotide binding]; other site 1111068002255 putative cAMP binding site [chemical binding]; other site 1111068002256 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1111068002257 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1111068002258 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 1111068002259 D-pathway; other site 1111068002260 Low-spin heme binding site [chemical binding]; other site 1111068002261 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional; Region: PLN03229 1111068002262 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 1111068002263 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1111068002264 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1111068002265 GTP binding site; other site 1111068002266 radical SAM protein, BA_1875 family; Region: sam_11; TIGR04053 1111068002267 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 1111068002268 FeS/SAM binding site; other site 1111068002269 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1111068002270 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1111068002271 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1111068002272 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1111068002273 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1111068002274 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 1111068002275 DNA binding residues [nucleotide binding] 1111068002276 Predicted membrane protein [Function unknown]; Region: COG1470 1111068002277 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1111068002278 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 1111068002279 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1111068002280 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1111068002281 Walker A/P-loop; other site 1111068002282 ATP binding site [chemical binding]; other site 1111068002283 Q-loop/lid; other site 1111068002284 ABC transporter signature motif; other site 1111068002285 Walker B; other site 1111068002286 D-loop; other site 1111068002287 H-loop/switch region; other site 1111068002288 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1111068002289 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1111068002290 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 1111068002291 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 1111068002292 putative substrate translocation pore; other site 1111068002293 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1111068002294 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 1111068002295 ligand binding site [chemical binding]; other site 1111068002296 flexible hinge region; other site 1111068002297 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 1111068002298 putative switch regulator; other site 1111068002299 non-specific DNA interactions [nucleotide binding]; other site 1111068002300 DNA binding site [nucleotide binding] 1111068002301 sequence specific DNA binding site [nucleotide binding]; other site 1111068002302 putative cAMP binding site [chemical binding]; other site 1111068002303 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1111068002304 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 1111068002305 putative PBP binding loops; other site 1111068002306 dimer interface [polypeptide binding]; other site 1111068002307 ABC-ATPase subunit interface; other site 1111068002308 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 1111068002309 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 1111068002310 FeS/SAM binding site; other site 1111068002311 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1111068002312 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 1111068002313 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 1111068002314 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1111068002315 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1111068002316 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 1111068002317 dimer interface [polypeptide binding]; other site 1111068002318 putative functional site; other site 1111068002319 putative MPT binding site; other site 1111068002320 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 1111068002321 Walker A motif; other site 1111068002322 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 1111068002323 MoaE homodimer interface [polypeptide binding]; other site 1111068002324 MoaD interaction [polypeptide binding]; other site 1111068002325 active site residues [active] 1111068002326 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1111068002327 MoaE interaction surface [polypeptide binding]; other site 1111068002328 MoeB interaction surface [polypeptide binding]; other site 1111068002329 thiocarboxylated glycine; other site 1111068002330 YwiC-like protein; Region: YwiC; pfam14256 1111068002331 Y-family of DNA polymerases; Region: PolY; cl12025 1111068002332 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068002333 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068002334 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068002335 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068002336 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1111068002337 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1111068002338 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 1111068002339 Walker A motif; other site 1111068002340 ATP binding site [chemical binding]; other site 1111068002341 Walker B motif; other site 1111068002342 arginine finger; other site 1111068002343 Integrase core domain; Region: rve; pfam00665 1111068002344 Integrase core domain; Region: rve_3; pfam13683 1111068002345 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1111068002346 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068002347 Winged helix-turn helix; Region: HTH_29; pfam13551 1111068002348 Homeodomain-like domain; Region: HTH_32; pfam13565 1111068002349 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1111068002350 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 1111068002351 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 1111068002352 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068002353 Coenzyme A binding pocket [chemical binding]; other site 1111068002354 Protein of unknown function DUF262; Region: DUF262; pfam03235 1111068002355 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1111068002356 Uncharacterized conserved protein [Function unknown]; Region: COG3472 1111068002357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1111068002358 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068002359 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1111068002360 Probable transposase; Region: OrfB_IS605; pfam01385 1111068002361 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1111068002362 EamA-like transporter family; Region: EamA; cl17759 1111068002363 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 1111068002364 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1111068002365 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1111068002366 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1111068002367 DNA binding site [nucleotide binding] 1111068002368 domain linker motif; other site 1111068002369 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_1; cd06277 1111068002370 putative dimerization interface [polypeptide binding]; other site 1111068002371 putative ligand binding site [chemical binding]; other site 1111068002372 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1111068002373 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1111068002374 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1111068002375 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 1111068002376 dimer interface [polypeptide binding]; other site 1111068002377 conserved gate region; other site 1111068002378 putative PBP binding loops; other site 1111068002379 ABC-ATPase subunit interface; other site 1111068002380 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1111068002381 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 1111068002382 dimer interface [polypeptide binding]; other site 1111068002383 conserved gate region; other site 1111068002384 ABC-ATPase subunit interface; other site 1111068002385 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 1111068002386 Predicted glycosylase [Carbohydrate transport and metabolism]; Region: COG2152 1111068002387 active site 1111068002388 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1111068002389 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1111068002390 active site 1111068002391 tetramer interface; other site 1111068002392 AAA domain; Region: AAA_21; pfam13304 1111068002393 Protein of unknown function, DUF488; Region: DUF488; cl01246 1111068002394 Macro domain, Unknown family 2. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases)...; Region: Macro_2; cd03330 1111068002395 putative ADP-ribose binding site [chemical binding]; other site 1111068002396 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 1111068002397 SNF2 Helicase protein; Region: DUF3670; pfam12419 1111068002398 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1111068002399 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 1111068002400 ATP binding site [chemical binding]; other site 1111068002401 putative Mg++ binding site [ion binding]; other site 1111068002402 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 1111068002403 nucleotide binding region [chemical binding]; other site 1111068002404 ATP-binding site [chemical binding]; other site 1111068002405 Uncharacterized conserved protein [Function unknown]; Region: COG4715 1111068002406 SEC-C motif; Region: SEC-C; pfam02810 1111068002407 SEC-C motif; Region: SEC-C; pfam02810 1111068002408 SEC-C motif; Region: SEC-C; pfam02810 1111068002409 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 1111068002410 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1111068002411 Bacterial SH3 domain; Region: SH3_3; pfam08239 1111068002412 Bacterial SH3 domain; Region: SH3_3; pfam08239 1111068002413 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1111068002414 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 1111068002415 active site 1111068002416 metal binding site [ion binding]; metal-binding site 1111068002417 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1111068002418 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068002419 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1111068002420 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 1111068002421 Catalytic site [active] 1111068002422 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068002423 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068002424 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1111068002425 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1111068002426 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068002427 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068002428 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1111068002429 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1111068002430 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1111068002431 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 1111068002432 ligand binding site [chemical binding]; other site 1111068002433 flexible hinge region; other site 1111068002434 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 1111068002435 putative switch regulator; other site 1111068002436 non-specific DNA interactions [nucleotide binding]; other site 1111068002437 DNA binding site [nucleotide binding] 1111068002438 sequence specific DNA binding site [nucleotide binding]; other site 1111068002439 putative cAMP binding site [chemical binding]; other site 1111068002440 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1111068002441 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1111068002442 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 1111068002443 heterotetramer interface [polypeptide binding]; other site 1111068002444 active site pocket [active] 1111068002445 cleavage site 1111068002446 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 1111068002447 nucleotide binding site [chemical binding]; other site 1111068002448 N-acetyl-L-glutamate binding site [chemical binding]; other site 1111068002449 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 1111068002450 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 1111068002451 inhibitor-cofactor binding pocket; inhibition site 1111068002452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068002453 catalytic residue [active] 1111068002454 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 1111068002455 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1111068002456 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1111068002457 catalytic site [active] 1111068002458 subunit interface [polypeptide binding]; other site 1111068002459 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 1111068002460 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1111068002461 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1111068002462 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1111068002463 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1111068002464 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1111068002465 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1111068002466 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1111068002467 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1111068002468 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 1111068002469 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1111068002470 putative active site [active] 1111068002471 putative NTP binding site [chemical binding]; other site 1111068002472 putative nucleic acid binding site [nucleotide binding]; other site 1111068002473 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1111068002474 YjzC-like protein; Region: YjzC; pfam14168 1111068002475 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1111068002476 Clp amino terminal domain; Region: Clp_N; pfam02861 1111068002477 Clp amino terminal domain; Region: Clp_N; pfam02861 1111068002478 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 1111068002479 Walker A motif; other site 1111068002480 ATP binding site [chemical binding]; other site 1111068002481 Walker B motif; other site 1111068002482 arginine finger; other site 1111068002483 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 1111068002484 Walker A motif; other site 1111068002485 ATP binding site [chemical binding]; other site 1111068002486 Walker B motif; other site 1111068002487 arginine finger; other site 1111068002488 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1111068002489 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 1111068002490 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1111068002491 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1111068002492 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 1111068002493 dimer interface [polypeptide binding]; other site 1111068002494 active site 1111068002495 CoA binding pocket [chemical binding]; other site 1111068002496 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1111068002497 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 1111068002498 dimer interface [polypeptide binding]; other site 1111068002499 active site 1111068002500 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; pfam10026 1111068002501 Protein of unknown function (DUF3603); Region: DUF3603; pfam12227 1111068002502 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1111068002503 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1111068002504 active site 1111068002505 HIGH motif; other site 1111068002506 dimer interface [polypeptide binding]; other site 1111068002507 KMSKS motif; other site 1111068002508 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 1111068002509 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1111068002510 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1111068002511 peptide binding site [polypeptide binding]; other site 1111068002512 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1111068002513 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 1111068002514 dimer interface [polypeptide binding]; other site 1111068002515 conserved gate region; other site 1111068002516 putative PBP binding loops; other site 1111068002517 ABC-ATPase subunit interface; other site 1111068002518 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1111068002519 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1111068002520 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 1111068002521 dimer interface [polypeptide binding]; other site 1111068002522 conserved gate region; other site 1111068002523 putative PBP binding loops; other site 1111068002524 ABC-ATPase subunit interface; other site 1111068002525 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1111068002526 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1111068002527 Walker A/P-loop; other site 1111068002528 ATP binding site [chemical binding]; other site 1111068002529 Q-loop/lid; other site 1111068002530 ABC transporter signature motif; other site 1111068002531 Walker B; other site 1111068002532 D-loop; other site 1111068002533 H-loop/switch region; other site 1111068002534 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1111068002535 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1111068002536 Walker A/P-loop; other site 1111068002537 ATP binding site [chemical binding]; other site 1111068002538 ABC transporter; Region: ABC_tran; pfam00005 1111068002539 Q-loop/lid; other site 1111068002540 ABC transporter signature motif; other site 1111068002541 Walker B; other site 1111068002542 D-loop; other site 1111068002543 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 1111068002544 ArsC family; Region: ArsC; pfam03960 1111068002545 putative catalytic residues [active] 1111068002546 thiol/disulfide switch; other site 1111068002547 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1111068002548 adaptor protein; Provisional; Region: PRK02315 1111068002549 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1111068002550 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1111068002551 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1111068002552 putative active site [active] 1111068002553 catalytic site [active] 1111068002554 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1111068002555 putative active site [active] 1111068002556 catalytic site [active] 1111068002557 Competence protein CoiA-like family; Region: CoiA; cl11541 1111068002558 oligoendopeptidase F; Region: pepF; TIGR00181 1111068002559 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1111068002560 active site 1111068002561 Zn binding site [ion binding]; other site 1111068002562 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1111068002563 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 1111068002564 catalytic residues [active] 1111068002565 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 1111068002566 apolar tunnel; other site 1111068002567 heme binding site [chemical binding]; other site 1111068002568 dimerization interface [polypeptide binding]; other site 1111068002569 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1111068002570 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 1111068002571 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1111068002572 catalytic residue [active] 1111068002573 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 1111068002574 putative active site [active] 1111068002575 putative metal binding residues [ion binding]; other site 1111068002576 signature motif; other site 1111068002577 putative triphosphate binding site [ion binding]; other site 1111068002578 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1111068002579 synthetase active site [active] 1111068002580 metal binding site [ion binding]; metal-binding site 1111068002581 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 1111068002582 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1111068002583 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1111068002584 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1111068002585 active site 1111068002586 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 1111068002587 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 1111068002588 active site 1111068002589 metal binding site [ion binding]; metal-binding site 1111068002590 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1111068002591 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 1111068002592 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1111068002593 NAD binding site [chemical binding]; other site 1111068002594 homotetramer interface [polypeptide binding]; other site 1111068002595 homodimer interface [polypeptide binding]; other site 1111068002596 substrate binding site [chemical binding]; other site 1111068002597 active site 1111068002598 Spore coat protein CotO; Region: Spore_coat_CotO; pfam14153 1111068002599 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1111068002600 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 1111068002601 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 1111068002602 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1111068002603 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1111068002604 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 1111068002605 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1111068002606 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1111068002607 NAD(P) binding site [chemical binding]; other site 1111068002608 active site 1111068002609 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1111068002610 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1111068002611 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1111068002612 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1111068002613 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1111068002614 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 1111068002615 putative ADP-binding pocket [chemical binding]; other site 1111068002616 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 1111068002617 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1111068002618 active site 1111068002619 ATP binding site [chemical binding]; other site 1111068002620 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 1111068002621 active site 1111068002622 ATP binding site [chemical binding]; other site 1111068002623 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 1111068002624 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 1111068002625 Bacteriophage holin; Region: Phage_holin_1; cl02344 1111068002626 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 1111068002627 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 1111068002628 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 1111068002629 stage V sporulation protein AD; Provisional; Region: PRK12404 1111068002630 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 1111068002631 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 1111068002632 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 1111068002633 Predicted membrane protein [Function unknown]; Region: COG2323 1111068002634 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 1111068002635 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 1111068002636 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1111068002637 catalytic residues [active] 1111068002638 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 1111068002639 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1111068002640 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068002641 Coenzyme A binding pocket [chemical binding]; other site 1111068002642 hypothetical protein; Provisional; Region: PRK13679 1111068002643 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1111068002644 Putative esterase; Region: Esterase; pfam00756 1111068002645 cystathionine gamma-synthase; Reviewed; Region: PRK08247 1111068002646 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 1111068002647 homodimer interface [polypeptide binding]; other site 1111068002648 substrate-cofactor binding pocket; other site 1111068002649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068002650 catalytic residue [active] 1111068002651 cystathionine beta-lyase; Provisional; Region: PRK08064 1111068002652 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 1111068002653 homodimer interface [polypeptide binding]; other site 1111068002654 substrate-cofactor binding pocket; other site 1111068002655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068002656 catalytic residue [active] 1111068002657 HAMP domain; Region: HAMP; pfam00672 1111068002658 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1111068002659 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1111068002660 Zn2+ binding site [ion binding]; other site 1111068002661 Mg2+ binding site [ion binding]; other site 1111068002662 AAA domain; Region: AAA_33; pfam13671 1111068002663 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 1111068002664 active site 1111068002665 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 1111068002666 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 1111068002667 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 1111068002668 ATP binding site [chemical binding]; other site 1111068002669 putative Mg++ binding site [ion binding]; other site 1111068002670 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1111068002671 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1111068002672 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1111068002673 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1111068002674 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1111068002675 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 1111068002676 dimerization interface [polypeptide binding]; other site 1111068002677 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1111068002678 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1111068002679 dimer interface [polypeptide binding]; other site 1111068002680 putative CheW interface [polypeptide binding]; other site 1111068002681 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1111068002682 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1111068002683 DNA binding site [nucleotide binding] 1111068002684 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 1111068002685 putative dimerization interface [polypeptide binding]; other site 1111068002686 putative ligand binding site [chemical binding]; other site 1111068002687 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1111068002688 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1111068002689 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 1111068002690 dimer interface [polypeptide binding]; other site 1111068002691 conserved gate region; other site 1111068002692 ABC-ATPase subunit interface; other site 1111068002693 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1111068002694 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 1111068002695 dimer interface [polypeptide binding]; other site 1111068002696 conserved gate region; other site 1111068002697 putative PBP binding loops; other site 1111068002698 ABC-ATPase subunit interface; other site 1111068002699 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1111068002700 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1111068002701 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1111068002702 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 1111068002703 Arabinogalactan endo-1,4-beta-galactosidase [Carbohydrate transport and metabolism]; Region: COG3867 1111068002704 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1111068002705 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 1111068002706 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 1111068002707 Predicted membrane protein [Function unknown]; Region: COG2259 1111068002708 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1111068002709 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 1111068002710 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1111068002711 putative oxidoreductase FixC; Provisional; Region: PRK10157 1111068002712 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1111068002713 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1111068002714 beta-galactosidase; Region: BGL; TIGR03356 1111068002715 Predicted flavoprotein [General function prediction only]; Region: COG0431 1111068002716 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1111068002717 YIEGIA protein; Region: YIEGIA; pfam14045 1111068002718 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068002719 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068002720 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068002721 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 1111068002722 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1111068002723 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1111068002724 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1111068002725 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1111068002726 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 1111068002727 iron-sulfur cluster [ion binding]; other site 1111068002728 [2Fe-2S] cluster binding site [ion binding]; other site 1111068002729 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1111068002730 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1111068002731 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1111068002732 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1111068002733 BNR repeat-like domain; Region: BNR_2; pfam13088 1111068002734 Family description; Region: DsbD_2; pfam13386 1111068002735 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1111068002736 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 1111068002737 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1111068002738 catalytic residues [active] 1111068002739 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1111068002740 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 1111068002741 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; cl00846 1111068002742 putative homodimer interface [polypeptide binding]; other site 1111068002743 putative homotetramer interface [polypeptide binding]; other site 1111068002744 putative allosteric switch controlling residues; other site 1111068002745 putative metal binding site [ion binding]; other site 1111068002746 putative homodimer-homodimer interface [polypeptide binding]; other site 1111068002747 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1111068002748 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 1111068002749 metal-binding site [ion binding] 1111068002750 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1111068002751 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 1111068002752 metal-binding site [ion binding] 1111068002753 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1111068002754 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 1111068002755 motif II; other site 1111068002756 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 1111068002757 metal-binding site [ion binding] 1111068002758 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1111068002759 Uncharacterized conserved protein [Function unknown]; Region: COG2361 1111068002760 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1111068002761 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1111068002762 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1111068002763 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1111068002764 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 1111068002765 putative active site [active] 1111068002766 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068002767 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068002768 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1111068002769 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 1111068002770 active site 1111068002771 dimer interface [polypeptide binding]; other site 1111068002772 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 1111068002773 Ligand Binding Site [chemical binding]; other site 1111068002774 Molecular Tunnel; other site 1111068002775 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1111068002776 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 1111068002777 dimer interface [polypeptide binding]; other site 1111068002778 phosphorylation site [posttranslational modification] 1111068002779 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 1111068002780 ATP binding site [chemical binding]; other site 1111068002781 Mg2+ binding site [ion binding]; other site 1111068002782 G-X-G motif; other site 1111068002783 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1111068002784 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 1111068002785 active site 1111068002786 phosphorylation site [posttranslational modification] 1111068002787 intermolecular recognition site; other site 1111068002788 dimerization interface [polypeptide binding]; other site 1111068002789 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 1111068002790 DNA binding site [nucleotide binding] 1111068002791 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1111068002792 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1111068002793 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1111068002794 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 1111068002795 Walker A/P-loop; other site 1111068002796 ATP binding site [chemical binding]; other site 1111068002797 Q-loop/lid; other site 1111068002798 ABC transporter signature motif; other site 1111068002799 Walker B; other site 1111068002800 D-loop; other site 1111068002801 H-loop/switch region; other site 1111068002802 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1111068002803 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 1111068002804 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1111068002805 active site 1111068002806 dimer interface [polypeptide binding]; other site 1111068002807 catalytic residues [active] 1111068002808 effector binding site; other site 1111068002809 R2 peptide binding site; other site 1111068002810 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1111068002811 dimer interface [polypeptide binding]; other site 1111068002812 putative radical transfer pathway; other site 1111068002813 diiron center [ion binding]; other site 1111068002814 tyrosyl radical; other site 1111068002815 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1111068002816 Zn2+ binding site [ion binding]; other site 1111068002817 Mg2+ binding site [ion binding]; other site 1111068002818 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1111068002819 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1111068002820 catalytic loop [active] 1111068002821 iron binding site [ion binding]; other site 1111068002822 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 1111068002823 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1111068002824 FAD binding domain; Region: FAD_binding_4; pfam01565 1111068002825 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1111068002826 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1111068002827 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1111068002828 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 1111068002829 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 1111068002830 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1111068002831 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1111068002832 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1111068002833 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 1111068002834 M20 Peptidase Aminoacylase 1 amhX_like subfamily; Region: M20_Acy1_amhX_like; cd08018 1111068002835 amidohydrolase; Region: amidohydrolases; TIGR01891 1111068002836 metal binding site [ion binding]; metal-binding site 1111068002837 putative dimer interface [polypeptide binding]; other site 1111068002838 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068002839 Coenzyme A binding pocket [chemical binding]; other site 1111068002840 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 1111068002841 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 1111068002842 active site 1111068002843 octamer interface [polypeptide binding]; other site 1111068002844 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 1111068002845 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1111068002846 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1111068002847 Na binding site [ion binding]; other site 1111068002848 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1111068002849 amino acid transporter; Region: 2A0306; TIGR00909 1111068002850 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1111068002851 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 1111068002852 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1111068002853 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 1111068002854 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 1111068002855 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1111068002856 putative active site [active] 1111068002857 putative NTP binding site [chemical binding]; other site 1111068002858 putative nucleic acid binding site [nucleotide binding]; other site 1111068002859 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1111068002860 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1111068002861 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 1111068002862 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1111068002863 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 1111068002864 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1111068002865 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1111068002866 NAD binding site [chemical binding]; other site 1111068002867 catalytic Zn binding site [ion binding]; other site 1111068002868 structural Zn binding site [ion binding]; other site 1111068002869 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 1111068002870 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1111068002871 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 1111068002872 FeS/SAM binding site; other site 1111068002873 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 1111068002874 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 1111068002875 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1111068002876 putative active site [active] 1111068002877 heme pocket [chemical binding]; other site 1111068002878 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 1111068002879 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1111068002880 putative active site [active] 1111068002881 heme pocket [chemical binding]; other site 1111068002882 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 1111068002883 putative active site [active] 1111068002884 heme pocket [chemical binding]; other site 1111068002885 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1111068002886 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 1111068002887 putative active site [active] 1111068002888 heme pocket [chemical binding]; other site 1111068002889 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 1111068002890 dimer interface [polypeptide binding]; other site 1111068002891 phosphorylation site [posttranslational modification] 1111068002892 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 1111068002893 ATP binding site [chemical binding]; other site 1111068002894 Mg2+ binding site [ion binding]; other site 1111068002895 G-X-G motif; other site 1111068002896 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1111068002897 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 1111068002898 DNA binding site [nucleotide binding] 1111068002899 active site 1111068002900 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1111068002901 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1111068002902 TM-ABC transporter signature motif; other site 1111068002903 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1111068002904 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1111068002905 Walker A/P-loop; other site 1111068002906 ATP binding site [chemical binding]; other site 1111068002907 Q-loop/lid; other site 1111068002908 ABC transporter signature motif; other site 1111068002909 Walker B; other site 1111068002910 D-loop; other site 1111068002911 H-loop/switch region; other site 1111068002912 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1111068002913 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 1111068002914 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1111068002915 putative ligand binding site [chemical binding]; other site 1111068002916 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1111068002917 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 1111068002918 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 1111068002919 Phosphotransferase enzyme family; Region: APH; pfam01636 1111068002920 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1111068002921 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 1111068002922 putative active site [active] 1111068002923 catalytic triad [active] 1111068002924 putative dimer interface [polypeptide binding]; other site 1111068002925 transaminase; Reviewed; Region: PRK08068 1111068002926 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 1111068002927 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068002928 homodimer interface [polypeptide binding]; other site 1111068002929 catalytic residue [active] 1111068002930 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: RLP_DK-MTP-1-P-enolase; cd08209 1111068002931 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 1111068002932 dimer interface [polypeptide binding]; other site 1111068002933 active site 1111068002934 catalytic residue [active] 1111068002935 metal binding site [ion binding]; metal-binding site 1111068002936 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1111068002937 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 1111068002938 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 1111068002939 motif II; other site 1111068002940 methylthioribulose-1-phosphate dehydratase; Reviewed; Region: mtnB; PRK06754 1111068002941 intersubunit interface [polypeptide binding]; other site 1111068002942 active site 1111068002943 Zn2+ binding site [ion binding]; other site 1111068002944 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1111068002945 Cupin domain; Region: Cupin_2; cl17218 1111068002946 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1111068002947 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1111068002948 MarR family; Region: MarR; pfam01047 1111068002949 MarR family; Region: MarR_2; cl17246 1111068002950 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 1111068002951 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1111068002952 Propanediol utilisation protein PduL; Region: PduL; pfam06130 1111068002953 short chain dehydrogenase; Provisional; Region: PRK08309 1111068002954 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1111068002955 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1111068002956 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1111068002957 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1111068002958 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1111068002959 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1111068002960 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068002961 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068002962 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1111068002963 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1111068002964 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1111068002965 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1111068002966 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 1111068002967 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 1111068002968 active site 1111068002969 Zn binding site [ion binding]; other site 1111068002970 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1111068002971 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068002972 Coenzyme A binding pocket [chemical binding]; other site 1111068002973 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1111068002974 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1111068002975 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1111068002976 Walker A/P-loop; other site 1111068002977 ATP binding site [chemical binding]; other site 1111068002978 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1111068002979 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1111068002980 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1111068002981 Protein of unknown function DUF86; Region: DUF86; pfam01934 1111068002982 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1111068002983 active site 1111068002984 NTP binding site [chemical binding]; other site 1111068002985 metal binding triad [ion binding]; metal-binding site 1111068002986 antibiotic binding site [chemical binding]; other site 1111068002987 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 1111068002988 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1111068002989 Walker A motif; other site 1111068002990 ATP binding site [chemical binding]; other site 1111068002991 Walker B motif; other site 1111068002992 arginine finger; other site 1111068002993 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 1111068002994 Walker A motif; other site 1111068002995 ATP binding site [chemical binding]; other site 1111068002996 Walker B motif; other site 1111068002997 arginine finger; other site 1111068002998 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1111068002999 YtkA-like; Region: YtkA; pfam13115 1111068003000 YtkA-like; Region: YtkA; pfam13115 1111068003001 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1111068003002 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1111068003003 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1111068003004 dimer interface [polypeptide binding]; other site 1111068003005 putative CheW interface [polypeptide binding]; other site 1111068003006 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1111068003007 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1111068003008 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1111068003009 Spore germination protein; Region: Spore_permease; pfam03845 1111068003010 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 1111068003011 Ligand Binding Site [chemical binding]; other site 1111068003012 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1111068003013 active site 1111068003014 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 1111068003015 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1111068003016 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 1111068003017 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1111068003018 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1111068003019 NAD binding site [chemical binding]; other site 1111068003020 active site 1111068003021 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; pfam09953 1111068003022 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1111068003023 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068003024 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1111068003025 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1111068003026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1111068003027 NAD(P) binding site [chemical binding]; other site 1111068003028 active site 1111068003029 YueH-like protein; Region: YueH; pfam14166 1111068003030 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1111068003031 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 1111068003032 putative active site [active] 1111068003033 heme pocket [chemical binding]; other site 1111068003034 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 1111068003035 dimer interface [polypeptide binding]; other site 1111068003036 phosphorylation site [posttranslational modification] 1111068003037 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 1111068003038 ATP binding site [chemical binding]; other site 1111068003039 Mg2+ binding site [ion binding]; other site 1111068003040 G-X-G motif; other site 1111068003041 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1111068003042 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1111068003043 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1111068003044 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1111068003045 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1111068003046 CAT RNA binding domain; Region: CAT_RBD; smart01061 1111068003047 PRD domain; Region: PRD; pfam00874 1111068003048 PRD domain; Region: PRD; pfam00874 1111068003049 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1111068003050 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1111068003051 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 1111068003052 active site turn [active] 1111068003053 phosphorylation site [posttranslational modification] 1111068003054 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 1111068003055 HPr interaction site; other site 1111068003056 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1111068003057 active site 1111068003058 phosphorylation site [posttranslational modification] 1111068003059 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 1111068003060 dimerization domain swap beta strand [polypeptide binding]; other site 1111068003061 regulatory protein interface [polypeptide binding]; other site 1111068003062 active site 1111068003063 regulatory phosphorylation site [posttranslational modification]; other site 1111068003064 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1111068003065 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1111068003066 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1111068003067 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1111068003068 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 1111068003069 TGF-beta propeptide; Region: TGFb_propeptide; pfam00688 1111068003070 RHS Repeat; Region: RHS_repeat; cl11982 1111068003071 RHS Repeat; Region: RHS_repeat; pfam05593 1111068003072 RHS Repeat; Region: RHS_repeat; cl11982 1111068003073 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068003074 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1111068003075 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1111068003076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1111068003077 Helix-turn-helix domain; Region: HTH_28; pfam13518 1111068003078 Homeodomain-like domain; Region: HTH_32; pfam13565 1111068003079 Winged helix-turn helix; Region: HTH_33; pfam13592 1111068003080 RHS protein; Region: RHS; pfam03527 1111068003081 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1111068003082 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068003083 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068003084 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068003085 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1111068003086 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068003087 Coenzyme A binding pocket [chemical binding]; other site 1111068003088 Cache domain; Region: Cache_1; pfam02743 1111068003089 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 1111068003090 dimerization interface [polypeptide binding]; other site 1111068003091 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1111068003092 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1111068003093 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1111068003094 dimer interface [polypeptide binding]; other site 1111068003095 putative CheW interface [polypeptide binding]; other site 1111068003096 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1111068003097 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 1111068003098 TPP-binding site [chemical binding]; other site 1111068003099 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1111068003100 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1111068003101 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 1111068003102 E3 interaction surface; other site 1111068003103 lipoyl attachment site [posttranslational modification]; other site 1111068003104 e3 binding domain; Region: E3_binding; pfam02817 1111068003105 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1111068003106 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1111068003107 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1111068003108 putative NAD(P) binding site [chemical binding]; other site 1111068003109 putative active site [active] 1111068003110 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1111068003111 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1111068003112 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1111068003113 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 1111068003114 FAD binding site [chemical binding]; other site 1111068003115 substrate binding site [chemical binding]; other site 1111068003116 catalytic base [active] 1111068003117 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1111068003118 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1111068003119 NAD(P) binding site [chemical binding]; other site 1111068003120 active site 1111068003121 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 1111068003122 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1111068003123 acyl-activating enzyme (AAE) consensus motif; other site 1111068003124 putative AMP binding site [chemical binding]; other site 1111068003125 putative active site [active] 1111068003126 putative CoA binding site [chemical binding]; other site 1111068003127 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1111068003128 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1111068003129 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 1111068003130 Phosphotransferase enzyme family; Region: APH; pfam01636 1111068003131 putative active site [active] 1111068003132 putative substrate binding site [chemical binding]; other site 1111068003133 ATP binding site [chemical binding]; other site 1111068003134 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 1111068003135 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1111068003136 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1111068003137 NAD(P) binding site [chemical binding]; other site 1111068003138 aminotransferase A; Validated; Region: PRK07683 1111068003139 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 1111068003140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068003141 homodimer interface [polypeptide binding]; other site 1111068003142 catalytic residue [active] 1111068003143 A short protein domain of unknown function; Region: IDEAL; smart00914 1111068003144 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1111068003145 Uncharacterized bacterial subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u2; cd12831 1111068003146 oligomer interface [polypeptide binding]; other site 1111068003147 metal binding site [ion binding]; metal-binding site 1111068003148 metal binding site [ion binding]; metal-binding site 1111068003149 putative Cl binding site [ion binding]; other site 1111068003150 aspartate ring; other site 1111068003151 basic sphincter; other site 1111068003152 hydrophobic gate; other site 1111068003153 periplasmic entrance; other site 1111068003154 BacA is a bacterial lysin from Enterococcus faecalis that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. BacA is homologous to the YbfG and YkuG lysins of...; Region: GH25_BacA-like; cd06418 1111068003155 active site 1111068003156 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1111068003157 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 1111068003158 active site 1111068003159 phosphorylation site [posttranslational modification] 1111068003160 dimerization interface [polypeptide binding]; other site 1111068003161 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1111068003162 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1111068003163 metal binding site [ion binding]; metal-binding site 1111068003164 active site 1111068003165 I-site; other site 1111068003166 Response regulator receiver domain; Region: Response_reg; pfam00072 1111068003167 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 1111068003168 active site 1111068003169 phosphorylation site [posttranslational modification] 1111068003170 intermolecular recognition site; other site 1111068003171 dimerization interface [polypeptide binding]; other site 1111068003172 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1111068003173 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1111068003174 DXD motif; other site 1111068003175 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 1111068003176 YkyB-like protein; Region: YkyB; pfam14177 1111068003177 phosphodiesterase YaeI; Provisional; Region: PRK11340 1111068003178 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1111068003179 putative active site [active] 1111068003180 putative metal binding site [ion binding]; other site 1111068003181 short chain dehydrogenase; Provisional; Region: PRK07677 1111068003182 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 1111068003183 NAD(P) binding site [chemical binding]; other site 1111068003184 substrate binding site [chemical binding]; other site 1111068003185 homotetramer interface [polypeptide binding]; other site 1111068003186 active site 1111068003187 homodimer interface [polypeptide binding]; other site 1111068003188 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 1111068003189 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 1111068003190 Antirepressor AbbA; Region: AbbA_antirepres; pfam14156 1111068003191 FOG: CBS domain [General function prediction only]; Region: COG0517 1111068003192 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 1111068003193 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 1111068003194 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 1111068003195 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 1111068003196 active site 1111068003197 trimer interface [polypeptide binding]; other site 1111068003198 substrate binding site [chemical binding]; other site 1111068003199 CoA binding site [chemical binding]; other site 1111068003200 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 1111068003201 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1111068003202 metal binding site [ion binding]; metal-binding site 1111068003203 putative dimer interface [polypeptide binding]; other site 1111068003204 hypothetical protein; Provisional; Region: PRK03094 1111068003205 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1111068003206 TrkA-N domain; Region: TrkA_N; pfam02254 1111068003207 TrkA-C domain; Region: TrkA_C; pfam02080 1111068003208 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1111068003209 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1111068003210 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1111068003211 hypothetical protein; Provisional; Region: PRK13667 1111068003212 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 1111068003213 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1111068003214 active site 1111068003215 motif I; other site 1111068003216 motif II; other site 1111068003217 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 1111068003218 motif II; other site 1111068003219 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 1111068003220 active site 1111068003221 catalytic residues [active] 1111068003222 metal binding site [ion binding]; metal-binding site 1111068003223 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1111068003224 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 1111068003225 TPP-binding site [chemical binding]; other site 1111068003226 tetramer interface [polypeptide binding]; other site 1111068003227 heterodimer interface [polypeptide binding]; other site 1111068003228 phosphorylation loop region [posttranslational modification] 1111068003229 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1111068003230 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 1111068003231 alpha subunit interface [polypeptide binding]; other site 1111068003232 TPP binding site [chemical binding]; other site 1111068003233 heterodimer interface [polypeptide binding]; other site 1111068003234 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1111068003235 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1111068003236 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 1111068003237 E3 interaction surface; other site 1111068003238 lipoyl attachment site [posttranslational modification]; other site 1111068003239 e3 binding domain; Region: E3_binding; pfam02817 1111068003240 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1111068003241 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1111068003242 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1111068003243 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1111068003244 Domain of unknown function (DUF1885); Region: DUF1885; pfam08968 1111068003245 Domain of unknown function (DUF4182); Region: DUF4182; pfam13790 1111068003246 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1111068003247 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 1111068003248 homodimer interface [polypeptide binding]; other site 1111068003249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068003250 catalytic residue [active] 1111068003251 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1111068003252 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1111068003253 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 1111068003254 FMN binding site [chemical binding]; other site 1111068003255 substrate binding site [chemical binding]; other site 1111068003256 putative catalytic residue [active] 1111068003257 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 1111068003258 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1111068003259 active site 1111068003260 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1111068003261 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1111068003262 G1 box; other site 1111068003263 putative GEF interaction site [polypeptide binding]; other site 1111068003264 GTP/Mg2+ binding site [chemical binding]; other site 1111068003265 Switch I region; other site 1111068003266 G2 box; other site 1111068003267 G3 box; other site 1111068003268 Switch II region; other site 1111068003269 G4 box; other site 1111068003270 G5 box; other site 1111068003271 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 1111068003272 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 1111068003273 YlaH-like protein; Region: YlaH; pfam14036 1111068003274 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; pfam09963 1111068003275 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 1111068003276 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 1111068003277 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1111068003278 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1111068003279 putative active site [active] 1111068003280 PhoH-like protein; Region: PhoH; pfam02562 1111068003281 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1111068003282 hypothetical protein; Provisional; Region: PRK13666 1111068003283 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1111068003284 pyruvate carboxylase; Reviewed; Region: PRK12999 1111068003285 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1111068003286 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1111068003287 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1111068003288 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1111068003289 active site 1111068003290 catalytic residues [active] 1111068003291 metal binding site [ion binding]; metal-binding site 1111068003292 homodimer binding site [polypeptide binding]; other site 1111068003293 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 1111068003294 carboxyltransferase (CT) interaction site; other site 1111068003295 biotinylation site [posttranslational modification]; other site 1111068003296 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1111068003297 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1111068003298 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1111068003299 UbiA prenyltransferase family; Region: UbiA; pfam01040 1111068003300 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1111068003301 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1111068003302 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1111068003303 Cytochrome c; Region: Cytochrom_C; pfam00034 1111068003304 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1111068003305 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 1111068003306 D-pathway; other site 1111068003307 Putative ubiquinol binding site [chemical binding]; other site 1111068003308 Low-spin heme (heme b) binding site [chemical binding]; other site 1111068003309 Putative water exit pathway; other site 1111068003310 Binuclear center (heme o3/CuB) [ion binding]; other site 1111068003311 K-pathway; other site 1111068003312 Putative proton exit pathway; other site 1111068003313 Ubiquinol oxidase subunit III subfamily. 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...; Region: Ubiquinol_oxidase_III; cd02863 1111068003314 Subunit I/III interface [polypeptide binding]; other site 1111068003315 Subunit III/IV interface [polypeptide binding]; other site 1111068003316 cytochrome c oxidase, subunit IVB; Region: CoxD_Bacillus; TIGR02908 1111068003317 cytochrome c oxidase assembly factor CtaG; Region: caa3_CtaG; TIGR02737 1111068003318 Protein of unknown function (DUF420); Region: DUF420; pfam04238 1111068003319 Asp23 family; Region: Asp23; cl00574 1111068003320 YugN-like family; Region: YugN; pfam08868 1111068003321 FOG: CBS domain [General function prediction only]; Region: COG0517 1111068003322 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 1111068003323 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1111068003324 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 1111068003325 Putative coat protein; Region: YlbD_coat; pfam14071 1111068003326 YlbE-like protein; Region: YlbE; pfam14003 1111068003327 Protein of unknown function (DUF964); Region: DUF964; pfam06133 1111068003328 hypothetical protein; Provisional; Region: PRK02886 1111068003329 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1111068003330 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 1111068003331 S-adenosylmethionine binding site [chemical binding]; other site 1111068003332 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1111068003333 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1111068003334 active site 1111068003335 (T/H)XGH motif; other site 1111068003336 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 1111068003337 Nucleoside recognition; Region: Gate; pfam07670 1111068003338 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1111068003339 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1111068003340 active site 1111068003341 nucleophile elbow; other site 1111068003342 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1111068003343 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 1111068003344 protein binding site [polypeptide binding]; other site 1111068003345 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1111068003346 hypothetical protein; Provisional; Region: PRK13670 1111068003347 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 1111068003348 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 1111068003349 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1111068003350 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1111068003351 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 1111068003352 substrate binding site [chemical binding]; other site 1111068003353 oxyanion hole (OAH) forming residues; other site 1111068003354 trimer interface [polypeptide binding]; other site 1111068003355 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 1111068003356 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 1111068003357 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1111068003358 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1111068003359 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1111068003360 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 1111068003361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 1111068003362 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 1111068003363 MraW methylase family; Region: Methyltransf_5; pfam01795 1111068003364 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1111068003365 Cell division protein FtsL; Region: FtsL; cl11433 1111068003366 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1111068003367 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1111068003368 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1111068003369 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 1111068003370 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 1111068003371 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 1111068003372 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1111068003373 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1111068003374 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 1111068003375 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1111068003376 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1111068003377 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1111068003378 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1111068003379 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1111068003380 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 1111068003381 Mg++ binding site [ion binding]; other site 1111068003382 putative catalytic motif [active] 1111068003383 putative substrate binding site [chemical binding]; other site 1111068003384 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1111068003385 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1111068003386 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1111068003387 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1111068003388 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1111068003389 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1111068003390 Cell division protein FtsQ; Region: FtsQ; pfam03799 1111068003391 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 1111068003392 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 1111068003393 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 1111068003394 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1111068003395 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1111068003396 nucleotide binding site [chemical binding]; other site 1111068003397 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 1111068003398 Cell division protein FtsA; Region: FtsA; pfam14450 1111068003399 cell division protein FtsZ; Validated; Region: PRK09330 1111068003400 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 1111068003401 nucleotide binding site [chemical binding]; other site 1111068003402 SulA interaction site; other site 1111068003403 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 1111068003404 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 1111068003405 sporulation sigma factor SigE; Reviewed; Region: PRK08301 1111068003406 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1111068003407 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 1111068003408 DNA binding residues [nucleotide binding] 1111068003409 sporulation sigma factor SigG; Reviewed; Region: PRK08215 1111068003410 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1111068003411 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1111068003412 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 1111068003413 DNA binding residues [nucleotide binding] 1111068003414 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 1111068003415 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1111068003416 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1111068003417 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1111068003418 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1111068003419 catalytic residue [active] 1111068003420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1111068003421 YGGT family; Region: YGGT; pfam02325 1111068003422 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1111068003423 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 1111068003424 RNA binding surface [nucleotide binding]; other site 1111068003425 DivIVA protein; Region: DivIVA; pfam05103 1111068003426 DivIVA domain; Region: DivI1A_domain; TIGR03544 1111068003427 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1111068003428 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1111068003429 HIGH motif; other site 1111068003430 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1111068003431 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1111068003432 active site 1111068003433 KMSKS motif; other site 1111068003434 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1111068003435 tRNA binding surface [nucleotide binding]; other site 1111068003436 anticodon binding site; other site 1111068003437 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1111068003438 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1111068003439 Walker A/P-loop; other site 1111068003440 ATP binding site [chemical binding]; other site 1111068003441 Q-loop/lid; other site 1111068003442 ABC transporter signature motif; other site 1111068003443 Walker B; other site 1111068003444 D-loop; other site 1111068003445 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1111068003446 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1111068003447 Walker A/P-loop; other site 1111068003448 ATP binding site [chemical binding]; other site 1111068003449 Q-loop/lid; other site 1111068003450 ABC transporter signature motif; other site 1111068003451 Walker B; other site 1111068003452 D-loop; other site 1111068003453 H-loop/switch region; other site 1111068003454 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1111068003455 Chordopoxvirus A33R protein; Region: Chordopox_A33R; cl17646 1111068003456 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1111068003457 lipoprotein signal peptidase; Provisional; Region: PRK14787 1111068003458 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1111068003459 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 1111068003460 RNA binding surface [nucleotide binding]; other site 1111068003461 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1111068003462 active site 1111068003463 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1111068003464 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1111068003465 active site 1111068003466 uracil-xanthine permease; Region: ncs2; TIGR00801 1111068003467 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1111068003468 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1111068003469 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1111068003470 dihydroorotase; Validated; Region: pyrC; PRK09357 1111068003471 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 1111068003472 active site 1111068003473 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1111068003474 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1111068003475 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1111068003476 catalytic site [active] 1111068003477 subunit interface [polypeptide binding]; other site 1111068003478 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1111068003479 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1111068003480 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1111068003481 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1111068003482 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1111068003483 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1111068003484 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 1111068003485 IMP binding site; other site 1111068003486 dimer interface [polypeptide binding]; other site 1111068003487 interdomain contacts; other site 1111068003488 partial ornithine binding site; other site 1111068003489 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1111068003490 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 1111068003491 FAD binding pocket [chemical binding]; other site 1111068003492 FAD binding motif [chemical binding]; other site 1111068003493 phosphate binding motif [ion binding]; other site 1111068003494 beta-alpha-beta structure motif; other site 1111068003495 NAD binding pocket [chemical binding]; other site 1111068003496 Iron coordination center [ion binding]; other site 1111068003497 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1111068003498 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 1111068003499 heterodimer interface [polypeptide binding]; other site 1111068003500 active site 1111068003501 FMN binding site [chemical binding]; other site 1111068003502 homodimer interface [polypeptide binding]; other site 1111068003503 substrate binding site [chemical binding]; other site 1111068003504 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 1111068003505 active site 1111068003506 dimer interface [polypeptide binding]; other site 1111068003507 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1111068003508 active site 1111068003509 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 1111068003510 putative active site [active] 1111068003511 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1111068003512 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1111068003513 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1111068003514 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1111068003515 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1111068003516 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1111068003517 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 1111068003518 motif II; other site 1111068003519 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1111068003520 hypothetical protein; Provisional; Region: PRK11820 1111068003521 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1111068003522 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1111068003523 hypothetical protein; Provisional; Region: PRK04323 1111068003524 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1111068003525 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 1111068003526 catalytic site [active] 1111068003527 G-X2-G-X-G-K; other site 1111068003528 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1111068003529 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1111068003530 Flavoprotein; Region: Flavoprotein; pfam02441 1111068003531 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1111068003532 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1111068003533 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 1111068003534 ATP binding site [chemical binding]; other site 1111068003535 putative Mg++ binding site [ion binding]; other site 1111068003536 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 1111068003537 nucleotide binding region [chemical binding]; other site 1111068003538 ATP-binding site [chemical binding]; other site 1111068003539 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 1111068003540 active site 1111068003541 catalytic residues [active] 1111068003542 metal binding site [ion binding]; metal-binding site 1111068003543 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1111068003544 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1111068003545 putative active site [active] 1111068003546 substrate binding site [chemical binding]; other site 1111068003547 putative cosubstrate binding site; other site 1111068003548 catalytic site [active] 1111068003549 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1111068003550 substrate binding site [chemical binding]; other site 1111068003551 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1111068003552 NusB family; Region: NusB; pfam01029 1111068003553 putative RNA binding site [nucleotide binding]; other site 1111068003554 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 1111068003555 S-adenosylmethionine binding site [chemical binding]; other site 1111068003556 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 1111068003557 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 1111068003558 FeS/SAM binding site; other site 1111068003559 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 1111068003560 Protein phosphatase 2C; Region: PP2C; pfam00481 1111068003561 active site 1111068003562 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1111068003563 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1111068003564 active site 1111068003565 ATP binding site [chemical binding]; other site 1111068003566 substrate binding site [chemical binding]; other site 1111068003567 activation loop (A-loop); other site 1111068003568 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1111068003569 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 1111068003570 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 1111068003571 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 1111068003572 GTPase RsgA; Reviewed; Region: PRK00098 1111068003573 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 1111068003574 RNA binding site [nucleotide binding]; other site 1111068003575 homodimer interface [polypeptide binding]; other site 1111068003576 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1111068003577 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1111068003578 GTP/Mg2+ binding site [chemical binding]; other site 1111068003579 G4 box; other site 1111068003580 G5 box; other site 1111068003581 G1 box; other site 1111068003582 Switch I region; other site 1111068003583 G2 box; other site 1111068003584 G3 box; other site 1111068003585 Switch II region; other site 1111068003586 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1111068003587 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 1111068003588 substrate binding site [chemical binding]; other site 1111068003589 hexamer interface [polypeptide binding]; other site 1111068003590 metal binding site [ion binding]; metal-binding site 1111068003591 Thiamine pyrophosphokinase; Region: TPK; cd07995 1111068003592 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1111068003593 active site 1111068003594 dimerization interface [polypeptide binding]; other site 1111068003595 thiamine binding site [chemical binding]; other site 1111068003596 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1111068003597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1111068003598 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1111068003599 DAK2 domain; Region: Dak2; pfam02734 1111068003600 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1111068003601 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1111068003602 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1111068003603 putative L-serine binding site [chemical binding]; other site 1111068003604 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1111068003605 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1111068003606 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1111068003607 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 1111068003608 generic binding surface II; other site 1111068003609 ssDNA binding site; other site 1111068003610 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 1111068003611 ATP binding site [chemical binding]; other site 1111068003612 putative Mg++ binding site [ion binding]; other site 1111068003613 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 1111068003614 nucleotide binding region [chemical binding]; other site 1111068003615 ATP-binding site [chemical binding]; other site 1111068003616 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 1111068003617 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 1111068003618 active site 2 [active] 1111068003619 active site 1 [active] 1111068003620 putative phosphate acyltransferase; Provisional; Region: PRK05331 1111068003621 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1111068003622 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1111068003623 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1111068003624 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1111068003625 NAD(P) binding site [chemical binding]; other site 1111068003626 homotetramer interface [polypeptide binding]; other site 1111068003627 homodimer interface [polypeptide binding]; other site 1111068003628 active site 1111068003629 acyl carrier protein; Provisional; Region: acpP; PRK00982 1111068003630 ribonuclease III; Reviewed; Region: rnc; PRK00102 1111068003631 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 1111068003632 dimerization interface [polypeptide binding]; other site 1111068003633 active site 1111068003634 metal binding site [ion binding]; metal-binding site 1111068003635 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 1111068003636 dsRNA binding site [nucleotide binding]; other site 1111068003637 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1111068003638 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1111068003639 Walker A/P-loop; other site 1111068003640 ATP binding site [chemical binding]; other site 1111068003641 Q-loop/lid; other site 1111068003642 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1111068003643 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1111068003644 ABC transporter signature motif; other site 1111068003645 Walker B; other site 1111068003646 D-loop; other site 1111068003647 H-loop/switch region; other site 1111068003648 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1111068003649 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1111068003650 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 1111068003651 P loop; other site 1111068003652 GTP binding site [chemical binding]; other site 1111068003653 putative DNA-binding protein; Validated; Region: PRK00118 1111068003654 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 1111068003655 signal recognition particle protein; Provisional; Region: PRK10867 1111068003656 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1111068003657 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 1111068003658 P loop; other site 1111068003659 GTP binding site [chemical binding]; other site 1111068003660 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1111068003661 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1111068003662 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1111068003663 KH domain; Region: KH_4; pfam13083 1111068003664 G-X-X-G motif; other site 1111068003665 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 1111068003666 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1111068003667 RimM N-terminal domain; Region: RimM; pfam01782 1111068003668 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1111068003669 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1111068003670 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1111068003671 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 1111068003672 Catalytic site [active] 1111068003673 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 1111068003674 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1111068003675 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1111068003676 GTP/Mg2+ binding site [chemical binding]; other site 1111068003677 G4 box; other site 1111068003678 G5 box; other site 1111068003679 G1 box; other site 1111068003680 Switch I region; other site 1111068003681 G2 box; other site 1111068003682 G3 box; other site 1111068003683 Switch II region; other site 1111068003684 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1111068003685 RNA/DNA hybrid binding site [nucleotide binding]; other site 1111068003686 active site 1111068003687 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 1111068003688 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1111068003689 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1111068003690 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1111068003691 CoA-ligase; Region: Ligase_CoA; pfam00549 1111068003692 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1111068003693 CoA binding domain; Region: CoA_binding; pfam02629 1111068003694 CoA-ligase; Region: Ligase_CoA; pfam00549 1111068003695 DNA protecting protein DprA; Region: dprA; TIGR00732 1111068003696 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1111068003697 DNA topoisomerase I; Validated; Region: PRK05582 1111068003698 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 1111068003699 active site 1111068003700 interdomain interaction site; other site 1111068003701 putative metal-binding site [ion binding]; other site 1111068003702 nucleotide binding site [chemical binding]; other site 1111068003703 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 1111068003704 domain I; other site 1111068003705 DNA binding groove [nucleotide binding] 1111068003706 phosphate binding site [ion binding]; other site 1111068003707 domain II; other site 1111068003708 domain III; other site 1111068003709 nucleotide binding site [chemical binding]; other site 1111068003710 catalytic site [active] 1111068003711 domain IV; other site 1111068003712 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1111068003713 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1111068003714 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1111068003715 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 1111068003716 active site 1111068003717 DNA binding site [nucleotide binding] 1111068003718 Int/Topo IB signature motif; other site 1111068003719 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 1111068003720 active site 1111068003721 HslU subunit interaction site [polypeptide binding]; other site 1111068003722 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1111068003723 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 1111068003724 Walker A motif; other site 1111068003725 ATP binding site [chemical binding]; other site 1111068003726 Walker B motif; other site 1111068003727 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1111068003728 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1111068003729 transcriptional repressor CodY; Validated; Region: PRK04158 1111068003730 CodY GAF-like domain; Region: CodY; pfam06018 1111068003731 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 1111068003732 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1111068003733 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1111068003734 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1111068003735 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1111068003736 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1111068003737 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 1111068003738 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1111068003739 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1111068003740 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1111068003741 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1111068003742 MgtE intracellular N domain; Region: MgtE_N; cl15244 1111068003743 FliG C-terminal domain; Region: FliG_C; pfam01706 1111068003744 flagellar assembly protein FliH; Region: FliH_bacil; TIGR03825 1111068003745 Flagellar assembly protein FliH; Region: FliH; pfam02108 1111068003746 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07721 1111068003747 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1111068003748 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 1111068003749 Walker A motif/ATP binding site; other site 1111068003750 Walker B motif; other site 1111068003751 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 1111068003752 MgtE intracellular N domain; Region: MgtE_N; cl15244 1111068003753 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1111068003754 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 1111068003755 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1111068003756 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 1111068003757 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1111068003758 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1111068003759 Flagellar protein (FlbD); Region: FlbD; pfam06289 1111068003760 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 1111068003761 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1111068003762 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1111068003763 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1111068003764 flagellar motor switch protein; Validated; Region: PRK08119 1111068003765 CheC-like family; Region: CheC; pfam04509 1111068003766 CheC-like family; Region: CheC; pfam04509 1111068003767 flagellar motor switch protein FliN; Region: fliN; TIGR02480 1111068003768 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 1111068003769 Response regulator receiver domain; Region: Response_reg; pfam00072 1111068003770 active site 1111068003771 phosphorylation site [posttranslational modification] 1111068003772 intermolecular recognition site; other site 1111068003773 dimerization interface [polypeptide binding]; other site 1111068003774 flagella biosynthesis protein FliZ; Provisional; Region: PRK13415 1111068003775 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1111068003776 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1111068003777 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1111068003778 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1111068003779 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1111068003780 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1111068003781 FHIPEP family; Region: FHIPEP; pfam00771 1111068003782 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1111068003783 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 1111068003784 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1111068003785 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 1111068003786 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 1111068003787 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1111068003788 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 1111068003789 active site 1111068003790 phosphorylation site [posttranslational modification] 1111068003791 intermolecular recognition site; other site 1111068003792 dimerization interface [polypeptide binding]; other site 1111068003793 CheB methylesterase; Region: CheB_methylest; pfam01339 1111068003794 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1111068003795 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 1111068003796 putative binding surface; other site 1111068003797 active site 1111068003798 P2 response regulator binding domain; Region: P2; pfam07194 1111068003799 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1111068003800 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 1111068003801 ATP binding site [chemical binding]; other site 1111068003802 Mg2+ binding site [ion binding]; other site 1111068003803 G-X-G motif; other site 1111068003804 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 1111068003805 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1111068003806 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1111068003807 Chemotaxis phosphatase CheX; Region: CheX; cl15816 1111068003808 CheC-like family; Region: CheC; pfam04509 1111068003809 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 1111068003810 RNA polymerase sigma factor SigD; Validated; Region: PRK07670 1111068003811 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1111068003812 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1111068003813 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 1111068003814 DNA binding residues [nucleotide binding] 1111068003815 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 1111068003816 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 1111068003817 rRNA interaction site [nucleotide binding]; other site 1111068003818 S8 interaction site; other site 1111068003819 putative laminin-1 binding site; other site 1111068003820 elongation factor Ts; Provisional; Region: tsf; PRK09377 1111068003821 UBA/TS-N domain; Region: UBA; pfam00627 1111068003822 Elongation factor TS; Region: EF_TS; pfam00889 1111068003823 Elongation factor TS; Region: EF_TS; pfam00889 1111068003824 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 1111068003825 putative nucleotide binding site [chemical binding]; other site 1111068003826 uridine monophosphate binding site [chemical binding]; other site 1111068003827 homohexameric interface [polypeptide binding]; other site 1111068003828 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1111068003829 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 1111068003830 hinge region; other site 1111068003831 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1111068003832 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 1111068003833 catalytic residue [active] 1111068003834 putative FPP diphosphate binding site; other site 1111068003835 putative FPP binding hydrophobic cleft; other site 1111068003836 dimer interface [polypeptide binding]; other site 1111068003837 putative IPP diphosphate binding site; other site 1111068003838 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1111068003839 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1111068003840 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1111068003841 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1111068003842 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1111068003843 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1111068003844 RIP metalloprotease RseP; Region: TIGR00054 1111068003845 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 1111068003846 active site 1111068003847 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 1111068003848 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 1111068003849 protein binding site [polypeptide binding]; other site 1111068003850 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 1111068003851 putative substrate binding region [chemical binding]; other site 1111068003852 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1111068003853 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 1111068003854 dimer interface [polypeptide binding]; other site 1111068003855 motif 1; other site 1111068003856 active site 1111068003857 motif 2; other site 1111068003858 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 1111068003859 putative deacylase active site [active] 1111068003860 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 1111068003861 active site 1111068003862 motif 3; other site 1111068003863 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 1111068003864 anticodon binding site; other site 1111068003865 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1111068003866 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1111068003867 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 1111068003868 generic binding surface I; other site 1111068003869 generic binding surface II; other site 1111068003870 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1111068003871 active site 1111068003872 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1111068003873 active site 1111068003874 catalytic site [active] 1111068003875 substrate binding site [chemical binding]; other site 1111068003876 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1111068003877 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1111068003878 Sm and related proteins; Region: Sm_like; cl00259 1111068003879 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1111068003880 putative oligomer interface [polypeptide binding]; other site 1111068003881 putative RNA binding site [nucleotide binding]; other site 1111068003882 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1111068003883 NusA N-terminal domain; Region: NusA_N; pfam08529 1111068003884 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 1111068003885 RNA binding site [nucleotide binding]; other site 1111068003886 homodimer interface [polypeptide binding]; other site 1111068003887 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 1111068003888 G-X-X-G motif; other site 1111068003889 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 1111068003890 G-X-X-G motif; other site 1111068003891 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 1111068003892 putative RNA binding cleft [nucleotide binding]; other site 1111068003893 hypothetical protein; Provisional; Region: PRK07714 1111068003894 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1111068003895 translation initiation factor IF-2; Region: IF-2; TIGR00487 1111068003896 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1111068003897 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1111068003898 G1 box; other site 1111068003899 putative GEF interaction site [polypeptide binding]; other site 1111068003900 GTP/Mg2+ binding site [chemical binding]; other site 1111068003901 Switch I region; other site 1111068003902 G2 box; other site 1111068003903 G3 box; other site 1111068003904 Switch II region; other site 1111068003905 G4 box; other site 1111068003906 G5 box; other site 1111068003907 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 1111068003908 Translation-initiation factor 2; Region: IF-2; pfam11987 1111068003909 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 1111068003910 Protein of unknown function (DUF503); Region: DUF503; pfam04456 1111068003911 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1111068003912 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 1111068003913 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1111068003914 RNA binding site [nucleotide binding]; other site 1111068003915 active site 1111068003916 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1111068003917 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1111068003918 active site 1111068003919 Riboflavin kinase; Region: Flavokinase; pfam01687 1111068003920 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 1111068003921 16S/18S rRNA binding site [nucleotide binding]; other site 1111068003922 S13e-L30e interaction site [polypeptide binding]; other site 1111068003923 25S rRNA binding site [nucleotide binding]; other site 1111068003924 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1111068003925 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1111068003926 RNase E interface [polypeptide binding]; other site 1111068003927 trimer interface [polypeptide binding]; other site 1111068003928 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1111068003929 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1111068003930 RNase E interface [polypeptide binding]; other site 1111068003931 trimer interface [polypeptide binding]; other site 1111068003932 active site 1111068003933 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 1111068003934 putative nucleic acid binding region [nucleotide binding]; other site 1111068003935 G-X-X-G motif; other site 1111068003936 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 1111068003937 RNA binding site [nucleotide binding]; other site 1111068003938 domain interface; other site 1111068003939 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 1111068003940 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 1111068003941 NodB motif; other site 1111068003942 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1111068003943 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1111068003944 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1111068003945 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 1111068003946 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 1111068003947 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 1111068003948 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 1111068003949 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1111068003950 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1111068003951 aspartate kinase I; Reviewed; Region: PRK08210 1111068003952 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 1111068003953 nucleotide binding site [chemical binding]; other site 1111068003954 substrate binding site [chemical binding]; other site 1111068003955 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 1111068003956 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1111068003957 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1111068003958 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1111068003959 dimer interface [polypeptide binding]; other site 1111068003960 active site 1111068003961 catalytic residue [active] 1111068003962 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1111068003963 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1111068003964 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1111068003965 Clp protease; Region: CLP_protease; pfam00574 1111068003966 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1111068003967 active site 1111068003968 YlzJ-like protein; Region: YlzJ; pfam14035 1111068003969 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1111068003970 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1111068003971 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1111068003972 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1111068003973 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1111068003974 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1111068003975 DNA-binding site [nucleotide binding]; DNA binding site 1111068003976 UTRA domain; Region: UTRA; pfam07702 1111068003977 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1111068003978 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 1111068003979 ligand binding site [chemical binding]; other site 1111068003980 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1111068003981 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1111068003982 Walker A/P-loop; other site 1111068003983 ATP binding site [chemical binding]; other site 1111068003984 Q-loop/lid; other site 1111068003985 ABC transporter signature motif; other site 1111068003986 Walker B; other site 1111068003987 D-loop; other site 1111068003988 H-loop/switch region; other site 1111068003989 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1111068003990 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1111068003991 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 1111068003992 TM-ABC transporter signature motif; other site 1111068003993 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1111068003994 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 1111068003995 TM-ABC transporter signature motif; other site 1111068003996 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1111068003997 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1111068003998 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1111068003999 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1111068004000 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1111068004001 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1111068004002 classical (c) SDRs; Region: SDR_c; cd05233 1111068004003 NAD(P) binding site [chemical binding]; other site 1111068004004 active site 1111068004005 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 1111068004006 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 1111068004007 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 1111068004008 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1111068004009 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 1111068004010 non-specific DNA binding site [nucleotide binding]; other site 1111068004011 salt bridge; other site 1111068004012 sequence-specific DNA binding site [nucleotide binding]; other site 1111068004013 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1111068004014 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 1111068004015 competence damage-inducible protein A; Provisional; Region: PRK00549 1111068004016 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 1111068004017 putative MPT binding site; other site 1111068004018 Competence-damaged protein; Region: CinA; pfam02464 1111068004019 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 1111068004020 Walker A motif; other site 1111068004021 ATP binding site [chemical binding]; other site 1111068004022 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 1111068004023 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1111068004024 putative active site [active] 1111068004025 putative NTP binding site [chemical binding]; other site 1111068004026 putative nucleic acid binding site [nucleotide binding]; other site 1111068004027 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 1111068004028 active site 1111068004029 recombinase A; Provisional; Region: recA; PRK09354 1111068004030 recA bacterial DNA recombination protein; Region: RecA; cl17211 1111068004031 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 1111068004032 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1111068004033 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1111068004034 Zn2+ binding site [ion binding]; other site 1111068004035 Mg2+ binding site [ion binding]; other site 1111068004036 Cation efflux family; Region: Cation_efflux; cl00316 1111068004037 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1111068004038 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1111068004039 putative active site [active] 1111068004040 metal binding site [ion binding]; metal-binding site 1111068004041 homodimer binding site [polypeptide binding]; other site 1111068004042 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 1111068004043 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1111068004044 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 1111068004045 active site 1111068004046 dimer interface [polypeptide binding]; other site 1111068004047 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1111068004048 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 1111068004049 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 1111068004050 dimer interface [polypeptide binding]; other site 1111068004051 PYR/PP interface [polypeptide binding]; other site 1111068004052 TPP binding site [chemical binding]; other site 1111068004053 substrate binding site [chemical binding]; other site 1111068004054 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1111068004055 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 1111068004056 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 1111068004057 TPP-binding site [chemical binding]; other site 1111068004058 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 1111068004059 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 1111068004060 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1111068004061 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 1111068004062 FeS/SAM binding site; other site 1111068004063 TRAM domain; Region: TRAM; cl01282 1111068004064 Predicted membrane protein [Function unknown]; Region: COG4550 1111068004065 Outer spore coat protein E (CotE); Region: CotE; pfam10628 1111068004066 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1111068004067 MutS domain I; Region: MutS_I; pfam01624 1111068004068 MutS domain II; Region: MutS_II; pfam05188 1111068004069 MutS domain III; Region: MutS_III; pfam05192 1111068004070 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1111068004071 Walker A/P-loop; other site 1111068004072 ATP binding site [chemical binding]; other site 1111068004073 Q-loop/lid; other site 1111068004074 ABC transporter signature motif; other site 1111068004075 Walker B; other site 1111068004076 D-loop; other site 1111068004077 H-loop/switch region; other site 1111068004078 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1111068004079 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 1111068004080 ATP binding site [chemical binding]; other site 1111068004081 Mg2+ binding site [ion binding]; other site 1111068004082 G-X-G motif; other site 1111068004083 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 1111068004084 ATP binding site [chemical binding]; other site 1111068004085 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1111068004086 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068004087 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1111068004088 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068004089 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1111068004090 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068004091 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1111068004092 NlpC/P60 family; Region: NLPC_P60; pfam00877 1111068004093 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1111068004094 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 1111068004095 putative substrate translocation pore; other site 1111068004096 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 1111068004097 CHASE3 domain; Region: CHASE3; cl05000 1111068004098 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1111068004099 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 1111068004100 dimerization interface [polypeptide binding]; other site 1111068004101 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1111068004102 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1111068004103 dimer interface [polypeptide binding]; other site 1111068004104 putative CheW interface [polypeptide binding]; other site 1111068004105 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1111068004106 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1111068004107 bacterial Hfq-like; Region: Hfq; cd01716 1111068004108 hexamer interface [polypeptide binding]; other site 1111068004109 Sm1 motif; other site 1111068004110 RNA binding site [nucleotide binding]; other site 1111068004111 Sm2 motif; other site 1111068004112 stage V sporulation protein K; Region: spore_V_K; TIGR02881 1111068004113 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 1111068004114 Walker A motif; other site 1111068004115 ATP binding site [chemical binding]; other site 1111068004116 Walker B motif; other site 1111068004117 arginine finger; other site 1111068004118 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1111068004119 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1111068004120 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1111068004121 acyl-activating enzyme (AAE) consensus motif; other site 1111068004122 acyl-activating enzyme (AAE) consensus motif; other site 1111068004123 putative AMP binding site [chemical binding]; other site 1111068004124 putative active site [active] 1111068004125 putative CoA binding site [chemical binding]; other site 1111068004126 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1111068004127 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1111068004128 active site 1111068004129 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1111068004130 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1111068004131 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1111068004132 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1111068004133 dimer interface [polypeptide binding]; other site 1111068004134 acyl-activating enzyme (AAE) consensus motif; other site 1111068004135 putative active site [active] 1111068004136 AMP binding site [chemical binding]; other site 1111068004137 putative CoA binding site [chemical binding]; other site 1111068004138 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1111068004139 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1111068004140 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1111068004141 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 1111068004142 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1111068004143 dimer interface [polypeptide binding]; other site 1111068004144 active site 1111068004145 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 1111068004146 putative active site [active] 1111068004147 EamA-like transporter family; Region: EamA; pfam00892 1111068004148 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1111068004149 EamA-like transporter family; Region: EamA; pfam00892 1111068004150 Predicted membrane protein [Function unknown]; Region: COG2860 1111068004151 UPF0126 domain; Region: UPF0126; pfam03458 1111068004152 UPF0126 domain; Region: UPF0126; pfam03458 1111068004153 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1111068004154 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1111068004155 HflX GTPase family; Region: HflX; cd01878 1111068004156 G1 box; other site 1111068004157 GTP/Mg2+ binding site [chemical binding]; other site 1111068004158 Switch I region; other site 1111068004159 G2 box; other site 1111068004160 G3 box; other site 1111068004161 Switch II region; other site 1111068004162 G4 box; other site 1111068004163 G5 box; other site 1111068004164 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 1111068004165 Aluminium resistance protein; Region: Alum_res; pfam06838 1111068004166 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1111068004167 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1111068004168 DNA binding residues [nucleotide binding] 1111068004169 putative dimer interface [polypeptide binding]; other site 1111068004170 glutamine synthetase, type I; Region: GlnA; TIGR00653 1111068004171 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1111068004172 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1111068004173 LexA repressor; Validated; Region: PRK00215 1111068004174 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 1111068004175 putative DNA binding site [nucleotide binding]; other site 1111068004176 putative Zn2+ binding site [ion binding]; other site 1111068004177 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 1111068004178 Catalytic site [active] 1111068004179 cell division suppressor protein YneA; Provisional; Region: PRK14125 1111068004180 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068004181 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1111068004182 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 1111068004183 catalytic residues [active] 1111068004184 catalytic nucleophile [active] 1111068004185 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 1111068004186 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1111068004187 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 1111068004188 TPP-binding site [chemical binding]; other site 1111068004189 dimer interface [polypeptide binding]; other site 1111068004190 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 1111068004191 PYR/PP interface [polypeptide binding]; other site 1111068004192 dimer interface [polypeptide binding]; other site 1111068004193 TPP binding site [chemical binding]; other site 1111068004194 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1111068004195 Protein of unknown function (DUF2522); Region: DUF2522; pfam10747 1111068004196 hypothetical protein; Provisional; Region: PRK01844 1111068004197 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1111068004198 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 1111068004199 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1111068004200 Walker A/P-loop; other site 1111068004201 ATP binding site [chemical binding]; other site 1111068004202 Q-loop/lid; other site 1111068004203 ABC transporter signature motif; other site 1111068004204 Walker B; other site 1111068004205 D-loop; other site 1111068004206 H-loop/switch region; other site 1111068004207 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1111068004208 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1111068004209 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1111068004210 Walker A/P-loop; other site 1111068004211 ATP binding site [chemical binding]; other site 1111068004212 Q-loop/lid; other site 1111068004213 ABC transporter signature motif; other site 1111068004214 Walker B; other site 1111068004215 D-loop; other site 1111068004216 H-loop/switch region; other site 1111068004217 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 1111068004218 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1111068004219 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 1111068004220 Response regulator receiver domain; Region: Response_reg; pfam00072 1111068004221 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 1111068004222 active site 1111068004223 phosphorylation site [posttranslational modification] 1111068004224 intermolecular recognition site; other site 1111068004225 dimerization interface [polypeptide binding]; other site 1111068004226 Protein of unknown function (DUF1453); Region: DUF1453; pfam07301 1111068004227 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 1111068004228 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1111068004229 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068004230 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1111068004231 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cl00166 1111068004232 methionine cluster; other site 1111068004233 active site 1111068004234 phosphorylation site [posttranslational modification] 1111068004235 metal binding site [ion binding]; metal-binding site 1111068004236 acid-soluble spore protein P; Provisional; Region: sspP; PRK09399 1111068004237 acid-soluble spore protein O; Provisional; Region: sspO; PRK02984 1111068004238 aconitate hydratase; Validated; Region: PRK09277 1111068004239 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1111068004240 substrate binding site [chemical binding]; other site 1111068004241 ligand binding site [chemical binding]; other site 1111068004242 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 1111068004243 substrate binding site [chemical binding]; other site 1111068004244 small, acid-soluble spore protein L; Region: SASP_sspL; TIGR03093 1111068004245 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1111068004246 EamA-like transporter family; Region: EamA; pfam00892 1111068004247 hypothetical protein; Validated; Region: PRK07708 1111068004248 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 1111068004249 RNA/DNA hybrid binding site [nucleotide binding]; other site 1111068004250 active site 1111068004251 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 1111068004252 Protein of unknown function (DUF2564); Region: DUF2564; pfam10819 1111068004253 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 1111068004254 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1111068004255 putative active site [active] 1111068004256 putative NTP binding site [chemical binding]; other site 1111068004257 putative nucleic acid binding site [nucleotide binding]; other site 1111068004258 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1111068004259 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 1111068004260 DNA-binding site [nucleotide binding]; DNA binding site 1111068004261 RNA-binding motif; other site 1111068004262 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 1111068004263 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1111068004264 amphipathic channel; other site 1111068004265 Asn-Pro-Ala signature motifs; other site 1111068004266 glycerol kinase; Provisional; Region: glpK; PRK00047 1111068004267 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1111068004268 N- and C-terminal domain interface [polypeptide binding]; other site 1111068004269 active site 1111068004270 MgATP binding site [chemical binding]; other site 1111068004271 catalytic site [active] 1111068004272 metal binding site [ion binding]; metal-binding site 1111068004273 glycerol binding site [chemical binding]; other site 1111068004274 homotetramer interface [polypeptide binding]; other site 1111068004275 homodimer interface [polypeptide binding]; other site 1111068004276 FBP binding site [chemical binding]; other site 1111068004277 protein IIAGlc interface [polypeptide binding]; other site 1111068004278 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1111068004279 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1111068004280 Walker A/P-loop; other site 1111068004281 ATP binding site [chemical binding]; other site 1111068004282 Q-loop/lid; other site 1111068004283 ABC transporter signature motif; other site 1111068004284 Walker B; other site 1111068004285 D-loop; other site 1111068004286 H-loop/switch region; other site 1111068004287 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1111068004288 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1111068004289 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1111068004290 Walker A/P-loop; other site 1111068004291 ATP binding site [chemical binding]; other site 1111068004292 Q-loop/lid; other site 1111068004293 ABC transporter signature motif; other site 1111068004294 Walker B; other site 1111068004295 D-loop; other site 1111068004296 H-loop/switch region; other site 1111068004297 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1111068004298 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1111068004299 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 1111068004300 putative PBP binding loops; other site 1111068004301 dimer interface [polypeptide binding]; other site 1111068004302 ABC-ATPase subunit interface; other site 1111068004303 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 1111068004304 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 1111068004305 dimer interface [polypeptide binding]; other site 1111068004306 conserved gate region; other site 1111068004307 putative PBP binding loops; other site 1111068004308 ABC-ATPase subunit interface; other site 1111068004309 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 1111068004310 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1111068004311 peptide binding site [polypeptide binding]; other site 1111068004312 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1111068004313 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 1111068004314 active site 1111068004315 metal binding site [ion binding]; metal-binding site 1111068004316 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068004317 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 1111068004318 CoenzymeA binding site [chemical binding]; other site 1111068004319 subunit interaction site [polypeptide binding]; other site 1111068004320 PHB binding site; other site 1111068004321 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 1111068004322 CoenzymeA binding site [chemical binding]; other site 1111068004323 subunit interaction site [polypeptide binding]; other site 1111068004324 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1111068004325 PHB binding site; other site 1111068004326 formimidoylglutamase; Provisional; Region: PRK13775 1111068004327 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1111068004328 putative active site [active] 1111068004329 putative metal binding site [ion binding]; other site 1111068004330 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1111068004331 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1111068004332 urocanate hydratase; Provisional; Region: PRK05414 1111068004333 imidazolonepropionase; Validated; Region: PRK09356 1111068004334 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 1111068004335 active site 1111068004336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 1111068004337 Nucleoside recognition; Region: Gate; pfam07670 1111068004338 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13953 1111068004339 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1111068004340 Sulphur transport; Region: Sulf_transp; pfam04143 1111068004341 Sulphur transport; Region: Sulf_transp; pfam04143 1111068004342 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1111068004343 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 1111068004344 ATP binding site [chemical binding]; other site 1111068004345 substrate binding site [chemical binding]; other site 1111068004346 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 1111068004347 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1111068004348 HEAT repeats; Region: HEAT_2; pfam13646 1111068004349 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 1111068004350 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1111068004351 putative active site [active] 1111068004352 metal binding site [ion binding]; metal-binding site 1111068004353 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1111068004354 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1111068004355 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1111068004356 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 1111068004357 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 1111068004358 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 1111068004359 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 1111068004360 Protein of unknown function (DUF524); Region: DUF524; pfam04411 1111068004361 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 1111068004362 homodimer interface [polypeptide binding]; other site 1111068004363 chemical substrate binding site [chemical binding]; other site 1111068004364 oligomer interface [polypeptide binding]; other site 1111068004365 metal binding site [ion binding]; metal-binding site 1111068004366 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1111068004367 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1111068004368 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 1111068004369 ATP binding site [chemical binding]; other site 1111068004370 putative Mg++ binding site [ion binding]; other site 1111068004371 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 1111068004372 nucleotide binding region [chemical binding]; other site 1111068004373 ATP-binding site [chemical binding]; other site 1111068004374 TAP42-like family; Region: TAP42; pfam04177 1111068004375 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1111068004376 DNA methylase; Region: N6_N4_Mtase; pfam01555 1111068004377 DNA methylase; Region: N6_N4_Mtase; pfam01555 1111068004378 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1111068004379 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1111068004380 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 1111068004381 dGTP triphosphohydrolase [Nucleotide transport and metabolism]; Region: Dgt; COG0232 1111068004382 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1111068004383 Zn2+ binding site [ion binding]; other site 1111068004384 Mg2+ binding site [ion binding]; other site 1111068004385 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1111068004386 This domain is found in the protein Piwi and its relatives; Region: Piwi; smart00950 1111068004387 5' RNA guide strand anchoring site; other site 1111068004388 active site 1111068004389 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1111068004390 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 1111068004391 Nuclease-related domain; Region: NERD; pfam08378 1111068004392 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1111068004393 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1111068004394 Uncharacterized conserved protein [Function unknown]; Region: COG4127 1111068004395 EVE domain; Region: EVE; cl00728 1111068004396 Restriction endonuclease; Region: Mrr_cat; pfam04471 1111068004397 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 1111068004398 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1111068004399 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1111068004400 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1111068004401 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 1111068004402 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1111068004403 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068004404 malate:quinone oxidoreductase; Validated; Region: PRK05257 1111068004405 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1111068004406 hypothetical protein; Provisional; Region: PRK03057 1111068004407 UPF0302 domain; Region: UPF0302; pfam08864 1111068004408 A short protein domain of unknown function; Region: IDEAL; smart00914 1111068004409 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1111068004410 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1111068004411 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 1111068004412 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1111068004413 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 1111068004414 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1111068004415 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1111068004416 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1111068004417 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 1111068004418 DNA binding residues [nucleotide binding] 1111068004419 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 1111068004420 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1111068004421 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 1111068004422 dimerization interface [polypeptide binding]; other site 1111068004423 putative DNA binding site [nucleotide binding]; other site 1111068004424 putative Zn2+ binding site [ion binding]; other site 1111068004425 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1111068004426 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1111068004427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1111068004428 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 1111068004429 putative dimerization interface [polypeptide binding]; other site 1111068004430 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 1111068004431 Flavodoxin; Region: Flavodoxin_1; pfam00258 1111068004432 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 1111068004433 FAD binding pocket [chemical binding]; other site 1111068004434 FAD binding motif [chemical binding]; other site 1111068004435 catalytic residues [active] 1111068004436 NAD binding pocket [chemical binding]; other site 1111068004437 phosphate binding motif [ion binding]; other site 1111068004438 beta-alpha-beta structure motif; other site 1111068004439 sulfite reductase subunit beta; Provisional; Region: PRK13504 1111068004440 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1111068004441 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1111068004442 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1111068004443 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1111068004444 NAD(P) binding site [chemical binding]; other site 1111068004445 catalytic residues [active] 1111068004446 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1111068004447 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 1111068004448 ABC-ATPase subunit interface; other site 1111068004449 dimer interface [polypeptide binding]; other site 1111068004450 putative PBP binding regions; other site 1111068004451 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 1111068004452 ABC-ATPase subunit interface; other site 1111068004453 dimer interface [polypeptide binding]; other site 1111068004454 putative PBP binding regions; other site 1111068004455 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1111068004456 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1111068004457 Walker A/P-loop; other site 1111068004458 ATP binding site [chemical binding]; other site 1111068004459 Q-loop/lid; other site 1111068004460 ABC transporter signature motif; other site 1111068004461 Walker B; other site 1111068004462 D-loop; other site 1111068004463 H-loop/switch region; other site 1111068004464 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 1111068004465 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 1111068004466 putative ligand binding residues [chemical binding]; other site 1111068004467 AAA domain; Region: AAA_30; pfam13604 1111068004468 AAA domain; Region: AAA_11; pfam13086 1111068004469 AAA domain; Region: AAA_12; pfam13087 1111068004470 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1111068004471 DNA methylase; Region: N6_N4_Mtase; pfam01555 1111068004472 DNA methylase; Region: N6_N4_Mtase; cl17433 1111068004473 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 1111068004474 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1111068004475 Na binding site [ion binding]; other site 1111068004476 putative substrate binding site [chemical binding]; other site 1111068004477 mammalian-like beta-alanine synthase (beta-AS) and similar proteins (class 5 nitrilases); Region: ML_beta-AS_like; cd07568 1111068004478 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1111068004479 putative active site [active] 1111068004480 catalytic triad [active] 1111068004481 multimer interface [polypeptide binding]; other site 1111068004482 dimer interface [polypeptide binding]; other site 1111068004483 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1111068004484 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 1111068004485 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1111068004486 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1111068004487 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1111068004488 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 1111068004489 homodimer interface [polypeptide binding]; other site 1111068004490 active site 1111068004491 FMN binding site [chemical binding]; other site 1111068004492 substrate binding site [chemical binding]; other site 1111068004493 4Fe-4S binding domain; Region: Fer4; pfam00037 1111068004494 phenylhydantoinase; Validated; Region: PRK08323 1111068004495 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 1111068004496 tetramer interface [polypeptide binding]; other site 1111068004497 active site 1111068004498 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1111068004499 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1111068004500 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1111068004501 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1111068004502 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068004503 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068004504 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068004505 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068004506 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1111068004507 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1111068004508 tetrameric interface [polypeptide binding]; other site 1111068004509 NAD binding site [chemical binding]; other site 1111068004510 catalytic residues [active] 1111068004511 aminotransferase; Validated; Region: PRK07678 1111068004512 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 1111068004513 inhibitor-cofactor binding pocket; inhibition site 1111068004514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068004515 catalytic residue [active] 1111068004516 Yhfp putative quinone oxidoreductases; Region: MDR_yhfp_like; cd08289 1111068004517 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1111068004518 putative NADP binding site [chemical binding]; other site 1111068004519 putative dimer interface [polypeptide binding]; other site 1111068004520 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1111068004521 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1111068004522 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 1111068004523 putative dimerization interface [polypeptide binding]; other site 1111068004524 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1111068004525 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 1111068004526 active site 1111068004527 dimer interface [polypeptide binding]; other site 1111068004528 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1111068004529 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 1111068004530 active site 1111068004531 FMN binding site [chemical binding]; other site 1111068004532 substrate binding site [chemical binding]; other site 1111068004533 3Fe-4S cluster binding site [ion binding]; other site 1111068004534 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 1111068004535 domain interface; other site 1111068004536 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1111068004537 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1111068004538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068004539 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068004540 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068004541 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068004542 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 1111068004543 active site 1111068004544 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1111068004545 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 1111068004546 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 1111068004547 Phosphotransferase enzyme family; Region: APH; pfam01636 1111068004548 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 1111068004549 active site 1111068004550 ATP binding site [chemical binding]; other site 1111068004551 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1111068004552 substrate binding site [chemical binding]; other site 1111068004553 NAD-dependent deacetylase; Provisional; Region: PRK00481 1111068004554 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2_Af2; cd01413 1111068004555 NAD+ binding site [chemical binding]; other site 1111068004556 substrate binding site [chemical binding]; other site 1111068004557 Zn binding site [ion binding]; other site 1111068004558 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1111068004559 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1111068004560 conserved cys residue [active] 1111068004561 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1111068004562 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1111068004563 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1111068004564 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1111068004565 putative NAD(P) binding site [chemical binding]; other site 1111068004566 hypothetical protein; Provisional; Region: PRK02947 1111068004567 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 1111068004568 putative active site [active] 1111068004569 alpha-mannosidase; Provisional; Region: PRK09819 1111068004570 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1111068004571 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 1111068004572 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068004573 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068004574 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068004575 multidrug resistance protein MdtH; Provisional; Region: PRK11646 1111068004576 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1111068004577 Probable transposase; Region: OrfB_IS605; pfam01385 1111068004578 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068004579 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1111068004580 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 1111068004581 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1111068004582 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1111068004583 LysE type translocator; Region: LysE; cl00565 1111068004584 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1111068004585 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; pfam10112 1111068004586 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 1111068004587 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 1111068004588 Protein of unknown function (DUF4025); Region: DUF4025; pfam13217 1111068004589 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 1111068004590 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1111068004591 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1111068004592 metal binding triad; other site 1111068004593 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 1111068004594 hypothetical protein; Provisional; Region: PRK07740 1111068004595 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1111068004596 active site 1111068004597 catalytic site [active] 1111068004598 substrate binding site [chemical binding]; other site 1111068004599 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 1111068004600 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 1111068004601 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1111068004602 putative active site [active] 1111068004603 putative NTP binding site [chemical binding]; other site 1111068004604 putative nucleic acid binding site [nucleotide binding]; other site 1111068004605 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1111068004606 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1111068004607 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 1111068004608 siderophore binding site; other site 1111068004609 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068004610 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068004611 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068004612 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068004613 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1111068004614 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 1111068004615 ABC-ATPase subunit interface; other site 1111068004616 dimer interface [polypeptide binding]; other site 1111068004617 putative PBP binding regions; other site 1111068004618 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1111068004619 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 1111068004620 ABC-ATPase subunit interface; other site 1111068004621 dimer interface [polypeptide binding]; other site 1111068004622 putative PBP binding regions; other site 1111068004623 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068004624 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068004625 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068004626 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1111068004627 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1111068004628 Walker A/P-loop; other site 1111068004629 ATP binding site [chemical binding]; other site 1111068004630 Q-loop/lid; other site 1111068004631 ABC transporter signature motif; other site 1111068004632 Walker B; other site 1111068004633 D-loop; other site 1111068004634 H-loop/switch region; other site 1111068004635 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 1111068004636 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1111068004637 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1111068004638 PAS domain S-box; Region: sensory_box; TIGR00229 1111068004639 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 1111068004640 heme pocket [chemical binding]; other site 1111068004641 putative active site [active] 1111068004642 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1111068004643 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1111068004644 metal binding site [ion binding]; metal-binding site 1111068004645 active site 1111068004646 I-site; other site 1111068004647 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 1111068004648 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068004649 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1111068004650 Coenzyme A binding pocket [chemical binding]; other site 1111068004651 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1111068004652 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cl00700 1111068004653 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 1111068004654 catalytic core [active] 1111068004655 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1111068004656 Nucleoside recognition; Region: Gate; pfam07670 1111068004657 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1111068004658 Nucleoside recognition; Region: Gate; pfam07670 1111068004659 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 1111068004660 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1111068004661 G1 box; other site 1111068004662 GTP/Mg2+ binding site [chemical binding]; other site 1111068004663 Switch I region; other site 1111068004664 G2 box; other site 1111068004665 G3 box; other site 1111068004666 Switch II region; other site 1111068004667 G4 box; other site 1111068004668 G5 box; other site 1111068004669 FeoA domain; Region: FeoA; pfam04023 1111068004670 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1111068004671 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1111068004672 acyl-activating enzyme (AAE) consensus motif; other site 1111068004673 putative AMP binding site [chemical binding]; other site 1111068004674 putative active site [active] 1111068004675 putative CoA binding site [chemical binding]; other site 1111068004676 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 1111068004677 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 1111068004678 Walker A/P-loop; other site 1111068004679 ATP binding site [chemical binding]; other site 1111068004680 Q-loop/lid; other site 1111068004681 ABC transporter signature motif; other site 1111068004682 Walker B; other site 1111068004683 D-loop; other site 1111068004684 H-loop/switch region; other site 1111068004685 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1111068004686 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1111068004687 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1111068004688 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1111068004689 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1111068004690 DNA binding residues [nucleotide binding] 1111068004691 putative dimer interface [polypeptide binding]; other site 1111068004692 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1111068004693 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1111068004694 acyl-activating enzyme (AAE) consensus motif; other site 1111068004695 putative AMP binding site [chemical binding]; other site 1111068004696 putative active site [active] 1111068004697 putative CoA binding site [chemical binding]; other site 1111068004698 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1111068004699 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1111068004700 active site 1111068004701 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1111068004702 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1111068004703 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1111068004704 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1111068004705 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 1111068004706 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 1111068004707 putative carbohydrate kinase; Provisional; Region: PRK10565 1111068004708 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1111068004709 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 1111068004710 putative substrate binding site [chemical binding]; other site 1111068004711 putative ATP binding site [chemical binding]; other site 1111068004712 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068004713 Coenzyme A binding pocket [chemical binding]; other site 1111068004714 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1111068004715 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1111068004716 Bacterial transcriptional regulator; Region: IclR; pfam01614 1111068004717 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1111068004718 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1111068004719 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1111068004720 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1111068004721 putative active site [active] 1111068004722 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1111068004723 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1111068004724 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 1111068004725 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1111068004726 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 1111068004727 acyl-activating enzyme (AAE) consensus motif; other site 1111068004728 putative AMP binding site [chemical binding]; other site 1111068004729 putative active site [active] 1111068004730 putative CoA binding site [chemical binding]; other site 1111068004731 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 1111068004732 active site 1111068004733 substrate binding pocket [chemical binding]; other site 1111068004734 homodimer interaction site [polypeptide binding]; other site 1111068004735 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 1111068004736 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1111068004737 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1111068004738 Ligand binding site; other site 1111068004739 Putative Catalytic site; other site 1111068004740 DXD motif; other site 1111068004741 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 1111068004742 substrate binding site [chemical binding]; other site 1111068004743 multimerization interface [polypeptide binding]; other site 1111068004744 ATP binding site [chemical binding]; other site 1111068004745 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 1111068004746 dimer interface [polypeptide binding]; other site 1111068004747 substrate binding site [chemical binding]; other site 1111068004748 ATP binding site [chemical binding]; other site 1111068004749 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 1111068004750 thiamine phosphate binding site [chemical binding]; other site 1111068004751 active site 1111068004752 pyrophosphate binding site [ion binding]; other site 1111068004753 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1111068004754 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1111068004755 small acid-soluble spore protein, H-type; Region: SASP_H; TIGR02861 1111068004756 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 1111068004757 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1111068004758 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1111068004759 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 1111068004760 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 1111068004761 active site 1111068004762 catalytic triad [active] 1111068004763 Coat F domain; Region: Coat_F; pfam07875 1111068004764 Domain of unknown function (DUF892); Region: DUF892; cl17410 1111068004765 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1111068004766 Histidine kinase N terminal; Region: HisK_N; pfam09385 1111068004767 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1111068004768 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 1111068004769 dimer interface [polypeptide binding]; other site 1111068004770 phosphorylation site [posttranslational modification] 1111068004771 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 1111068004772 ATP binding site [chemical binding]; other site 1111068004773 Mg2+ binding site [ion binding]; other site 1111068004774 G-X-G motif; other site 1111068004775 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1111068004776 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 1111068004777 dimer interface [polypeptide binding]; other site 1111068004778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068004779 catalytic residue [active] 1111068004780 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1111068004781 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1111068004782 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1111068004783 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1111068004784 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1111068004785 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 1111068004786 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1111068004787 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1111068004788 FAD binding domain; Region: FAD_binding_4; pfam01565 1111068004789 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1111068004790 Cysteine-rich domain; Region: CCG; pfam02754 1111068004791 Cysteine-rich domain; Region: CCG; pfam02754 1111068004792 FAD binding domain; Region: FAD_binding_4; pfam01565 1111068004793 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1111068004794 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 1111068004795 active site 1111068004796 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1111068004797 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1111068004798 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1111068004799 putative NAD(P) binding site [chemical binding]; other site 1111068004800 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 1111068004801 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 1111068004802 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1111068004803 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1111068004804 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1111068004805 Bacterial transcriptional regulator; Region: IclR; pfam01614 1111068004806 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 1111068004807 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 1111068004808 ATP binding site [chemical binding]; other site 1111068004809 putative Mg++ binding site [ion binding]; other site 1111068004810 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 1111068004811 nucleotide binding region [chemical binding]; other site 1111068004812 ATP-binding site [chemical binding]; other site 1111068004813 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 1111068004814 RNase_H superfamily; Region: RNase_H_2; pfam13482 1111068004815 active site 1111068004816 substrate binding site [chemical binding]; other site 1111068004817 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 1111068004818 cell division protein GpsB; Provisional; Region: PRK14127 1111068004819 DivIVA domain; Region: DivI1A_domain; TIGR03544 1111068004820 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1111068004821 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1111068004822 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 1111068004823 S-adenosylmethionine binding site [chemical binding]; other site 1111068004824 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1111068004825 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1111068004826 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1111068004827 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1111068004828 active site 1111068004829 Zn binding site [ion binding]; other site 1111068004830 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 1111068004831 D-pathway; other site 1111068004832 Low-spin heme binding site [chemical binding]; other site 1111068004833 Putative water exit pathway; other site 1111068004834 Binuclear center (active site) [active] 1111068004835 K-pathway; other site 1111068004836 Putative proton exit pathway; other site 1111068004837 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1111068004838 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1111068004839 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 1111068004840 active site 1111068004841 xanthine permease; Region: pbuX; TIGR03173 1111068004842 xanthine permease; Region: pbuX; TIGR03173 1111068004843 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1111068004844 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 1111068004845 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 1111068004846 malonyl-CoA binding site [chemical binding]; other site 1111068004847 dimer interface [polypeptide binding]; other site 1111068004848 active site 1111068004849 product binding site; other site 1111068004850 Phospholipid methyltransferase; Region: PEMT; cl17370 1111068004851 Protein of unknown function, DUF258; Region: DUF258; pfam03193 1111068004852 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1111068004853 Dynamin family; Region: Dynamin_N; pfam00350 1111068004854 G1 box; other site 1111068004855 GTP/Mg2+ binding site [chemical binding]; other site 1111068004856 G2 box; other site 1111068004857 Switch I region; other site 1111068004858 G3 box; other site 1111068004859 Switch II region; other site 1111068004860 G4 box; other site 1111068004861 G5 box; other site 1111068004862 Dynamin family; Region: Dynamin_N; pfam00350 1111068004863 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1111068004864 G3 box; other site 1111068004865 Switch II region; other site 1111068004866 GTP/Mg2+ binding site [chemical binding]; other site 1111068004867 G4 box; other site 1111068004868 G5 box; other site 1111068004869 Protein of unknown function (DUF2533); Region: DUF2533; pfam10752 1111068004870 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1111068004871 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 1111068004872 active site residue [active] 1111068004873 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 1111068004874 active site residue [active] 1111068004875 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 1111068004876 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1111068004877 catalytic residues [active] 1111068004878 acid-soluble spore protein N; Provisional; Region: sspN; PRK09398 1111068004879 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 1111068004880 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 1111068004881 active site 1111068004882 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068004883 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068004884 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 1111068004885 CoenzymeA binding site [chemical binding]; other site 1111068004886 subunit interaction site [polypeptide binding]; other site 1111068004887 PHB binding site; other site 1111068004888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4841 1111068004889 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1111068004890 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1111068004891 Cl binding site [ion binding]; other site 1111068004892 oligomer interface [polypeptide binding]; other site 1111068004893 Protein of unknown function (DUF502); Region: DUF502; cl01107 1111068004894 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1111068004895 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1111068004896 biotin synthase; Validated; Region: PRK06256 1111068004897 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 1111068004898 FeS/SAM binding site; other site 1111068004899 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1111068004900 hypothetical protein; Provisional; Region: PRK13672 1111068004901 YozD-like protein; Region: YozD; pfam14162 1111068004902 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 1111068004903 YodL-like; Region: YodL; pfam14191 1111068004904 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1111068004905 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1111068004906 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1111068004907 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1111068004908 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1111068004909 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 1111068004910 S-adenosylmethionine binding site [chemical binding]; other site 1111068004911 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1111068004912 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1111068004913 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1111068004914 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1111068004915 oligomer interface [polypeptide binding]; other site 1111068004916 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1111068004917 EamA-like transporter family; Region: EamA; pfam00892 1111068004918 Uncharacterized conserved protein [Function unknown]; Region: COG3342 1111068004919 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 1111068004920 Putative peptidoglycan binding domain; Region: PG_binding_2; pfam08823 1111068004921 multidrug efflux protein; Reviewed; Region: PRK01766 1111068004922 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1111068004923 cation binding site [ion binding]; other site 1111068004924 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1111068004925 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 1111068004926 putative active site [active] 1111068004927 heme pocket [chemical binding]; other site 1111068004928 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 1111068004929 dimer interface [polypeptide binding]; other site 1111068004930 phosphorylation site [posttranslational modification] 1111068004931 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 1111068004932 ATP binding site [chemical binding]; other site 1111068004933 Mg2+ binding site [ion binding]; other site 1111068004934 G-X-G motif; other site 1111068004935 threonine dehydratase; Provisional; Region: PRK08198 1111068004936 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 1111068004937 tetramer interface [polypeptide binding]; other site 1111068004938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068004939 catalytic residue [active] 1111068004940 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 1111068004941 Predicted acetyltransferase [General function prediction only]; Region: COG3393 1111068004942 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1111068004943 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1111068004944 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1111068004945 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 1111068004946 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1111068004947 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1111068004948 active site 1111068004949 AMP-binding domain protein; Validated; Region: PRK08315 1111068004950 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1111068004951 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1111068004952 acyl-activating enzyme (AAE) consensus motif; other site 1111068004953 putative AMP binding site [chemical binding]; other site 1111068004954 putative active site [active] 1111068004955 putative CoA binding site [chemical binding]; other site 1111068004956 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 1111068004957 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1111068004958 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1111068004959 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1111068004960 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 1111068004961 carboxyltransferase (CT) interaction site; other site 1111068004962 biotinylation site [posttranslational modification]; other site 1111068004963 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1111068004964 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1111068004965 active site 1111068004966 catalytic residues [active] 1111068004967 metal binding site [ion binding]; metal-binding site 1111068004968 enoyl-CoA hydratase; Provisional; Region: PRK07657 1111068004969 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 1111068004970 substrate binding site [chemical binding]; other site 1111068004971 oxyanion hole (OAH) forming residues; other site 1111068004972 trimer interface [polypeptide binding]; other site 1111068004973 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1111068004974 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1111068004975 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1111068004976 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1111068004977 MarR family; Region: MarR; pfam01047 1111068004978 HlyD family secretion protein; Region: HlyD_3; pfam13437 1111068004979 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1111068004980 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 1111068004981 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1111068004982 putative substrate translocation pore; other site 1111068004983 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 1111068004984 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1111068004985 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1111068004986 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068004987 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1111068004988 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068004989 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1111068004990 Protein of unknown function (DUF2639); Region: DUF2639; pfam11121 1111068004991 NETI protein; Region: NETI; pfam14044 1111068004992 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 1111068004993 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1111068004994 putative active site [active] 1111068004995 putative NTP binding site [chemical binding]; other site 1111068004996 putative nucleic acid binding site [nucleotide binding]; other site 1111068004997 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1111068004998 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1111068004999 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 1111068005000 dimer interface [polypeptide binding]; other site 1111068005001 phosphorylation site [posttranslational modification] 1111068005002 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 1111068005003 ATP binding site [chemical binding]; other site 1111068005004 Mg2+ binding site [ion binding]; other site 1111068005005 G-X-G motif; other site 1111068005006 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1111068005007 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1111068005008 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1111068005009 Spore germination protein; Region: Spore_permease; cl17796 1111068005010 Protein of unknown function (DUF421); Region: DUF421; cl00990 1111068005011 potential frameshift: common BLAST hit: gi|297530180|ref|YP_003671455.1| GntR family transcriptional regulator 1111068005012 Predicted transcriptional regulators [Transcription]; Region: COG1725 1111068005013 Predicted transcriptional regulators [Transcription]; Region: COG1725 1111068005014 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1111068005015 DNA-binding site [nucleotide binding]; DNA binding site 1111068005016 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1111068005017 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1111068005018 Walker A/P-loop; other site 1111068005019 ATP binding site [chemical binding]; other site 1111068005020 Q-loop/lid; other site 1111068005021 ABC transporter signature motif; other site 1111068005022 Walker B; other site 1111068005023 D-loop; other site 1111068005024 H-loop/switch region; other site 1111068005025 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1111068005026 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1111068005027 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1111068005028 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1111068005029 Spore germination protein; Region: Spore_permease; pfam03845 1111068005030 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 1111068005031 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1111068005032 putative active site [active] 1111068005033 heme pocket [chemical binding]; other site 1111068005034 PAS domain; Region: PAS; smart00091 1111068005035 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1111068005036 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1111068005037 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 1111068005038 anti sigma factor interaction site; other site 1111068005039 regulatory phosphorylation site [posttranslational modification]; other site 1111068005040 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1111068005041 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1111068005042 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1111068005043 Walker A/P-loop; other site 1111068005044 ATP binding site [chemical binding]; other site 1111068005045 Q-loop/lid; other site 1111068005046 ABC transporter signature motif; other site 1111068005047 Walker B; other site 1111068005048 D-loop; other site 1111068005049 H-loop/switch region; other site 1111068005050 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1111068005051 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1111068005052 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1111068005053 Walker A/P-loop; other site 1111068005054 ATP binding site [chemical binding]; other site 1111068005055 Q-loop/lid; other site 1111068005056 ABC transporter signature motif; other site 1111068005057 Walker B; other site 1111068005058 D-loop; other site 1111068005059 H-loop/switch region; other site 1111068005060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1111068005061 MOSC domain; Region: MOSC; pfam03473 1111068005062 3-alpha domain; Region: 3-alpha; pfam03475 1111068005063 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1111068005064 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1111068005065 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1111068005066 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 1111068005067 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1111068005068 putative catalytic residue [active] 1111068005069 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1111068005070 putative active site pocket [active] 1111068005071 dimerization interface [polypeptide binding]; other site 1111068005072 putative catalytic residue [active] 1111068005073 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068005074 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068005075 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1111068005076 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1111068005077 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1111068005078 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1111068005079 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1111068005080 Probable transposase; Region: OrfB_IS605; pfam01385 1111068005081 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068005082 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1111068005083 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1111068005084 Members of the SGNH-hydrolase superfamily, 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_YpmR_like; cd04506 1111068005085 active site 1111068005086 catalytic triad [active] 1111068005087 oxyanion hole [active] 1111068005088 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1111068005089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1111068005090 Walker A/P-loop; other site 1111068005091 ATP binding site [chemical binding]; other site 1111068005092 Q-loop/lid; other site 1111068005093 ABC transporter signature motif; other site 1111068005094 Walker B; other site 1111068005095 D-loop; other site 1111068005096 H-loop/switch region; other site 1111068005097 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1111068005098 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1111068005099 Probable transposase; Region: OrfB_IS605; pfam01385 1111068005100 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068005101 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1111068005102 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1111068005103 PemK-like protein; Region: PemK; cl00995 1111068005104 Pirin-related protein [General function prediction only]; Region: COG1741 1111068005105 Pirin; Region: Pirin; pfam02678 1111068005106 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1111068005107 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 1111068005108 dimer interface [polypeptide binding]; other site 1111068005109 FMN binding site [chemical binding]; other site 1111068005110 NADPH bind site [chemical binding]; other site 1111068005111 NAD-dependent deacetylase; Provisional; Region: PRK00481 1111068005112 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1111068005113 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1111068005114 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1111068005115 active site 1111068005116 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1111068005117 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1111068005118 NAD(P) binding site [chemical binding]; other site 1111068005119 homotetramer interface [polypeptide binding]; other site 1111068005120 homodimer interface [polypeptide binding]; other site 1111068005121 active site 1111068005122 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1111068005123 active site 1111068005124 catalytic site [active] 1111068005125 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 1111068005126 active site 1111068005127 catalytic site [active] 1111068005128 putative acyltransferase; Provisional; Region: PRK05790 1111068005129 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 1111068005130 dimer interface [polypeptide binding]; other site 1111068005131 active site 1111068005132 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1111068005133 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1111068005134 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1111068005135 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 1111068005136 TM-ABC transporter signature motif; other site 1111068005137 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1111068005138 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 1111068005139 TM-ABC transporter signature motif; other site 1111068005140 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1111068005141 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1111068005142 Walker A/P-loop; other site 1111068005143 ATP binding site [chemical binding]; other site 1111068005144 Q-loop/lid; other site 1111068005145 ABC transporter signature motif; other site 1111068005146 Walker B; other site 1111068005147 D-loop; other site 1111068005148 H-loop/switch region; other site 1111068005149 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1111068005150 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1111068005151 Walker A/P-loop; other site 1111068005152 ATP binding site [chemical binding]; other site 1111068005153 Q-loop/lid; other site 1111068005154 ABC transporter signature motif; other site 1111068005155 Walker B; other site 1111068005156 D-loop; other site 1111068005157 H-loop/switch region; other site 1111068005158 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 1111068005159 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1111068005160 putative ligand binding site [chemical binding]; other site 1111068005161 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1111068005162 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 1111068005163 QueT transporter; Region: QueT; pfam06177 1111068005164 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1111068005165 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1111068005166 Chromate transporter; Region: Chromate_transp; pfam02417 1111068005167 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1111068005168 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1111068005169 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 1111068005170 active site 1111068005171 dimer interface [polypeptide binding]; other site 1111068005172 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1111068005173 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1111068005174 Walker A/P-loop; other site 1111068005175 ATP binding site [chemical binding]; other site 1111068005176 Q-loop/lid; other site 1111068005177 ABC transporter signature motif; other site 1111068005178 Walker B; other site 1111068005179 D-loop; other site 1111068005180 H-loop/switch region; other site 1111068005181 Trehalase; Region: Trehalase; cl17346 1111068005182 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1111068005183 classical (c) SDRs; Region: SDR_c; cd05233 1111068005184 NAD(P) binding site [chemical binding]; other site 1111068005185 active site 1111068005186 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1111068005187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1111068005188 NAD(P) binding site [chemical binding]; other site 1111068005189 active site 1111068005190 enoyl-CoA hydratase; Provisional; Region: PRK06688 1111068005191 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 1111068005192 substrate binding site [chemical binding]; other site 1111068005193 oxyanion hole (OAH) forming residues; other site 1111068005194 trimer interface [polypeptide binding]; other site 1111068005195 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1111068005196 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1111068005197 active site 1111068005198 ATP binding site [chemical binding]; other site 1111068005199 substrate binding site [chemical binding]; other site 1111068005200 activation loop (A-loop); other site 1111068005201 DNA topoisomerase III; Provisional; Region: PRK07726 1111068005202 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 1111068005203 active site 1111068005204 putative interdomain interaction site [polypeptide binding]; other site 1111068005205 putative metal-binding site [ion binding]; other site 1111068005206 putative nucleotide binding site [chemical binding]; other site 1111068005207 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 1111068005208 domain I; other site 1111068005209 DNA binding groove [nucleotide binding] 1111068005210 phosphate binding site [ion binding]; other site 1111068005211 domain II; other site 1111068005212 domain III; other site 1111068005213 nucleotide binding site [chemical binding]; other site 1111068005214 catalytic site [active] 1111068005215 domain IV; other site 1111068005216 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1111068005217 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1111068005218 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 1111068005219 dimerization interface [polypeptide binding]; other site 1111068005220 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 1111068005221 dimer interface [polypeptide binding]; other site 1111068005222 phosphorylation site [posttranslational modification] 1111068005223 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 1111068005224 ATP binding site [chemical binding]; other site 1111068005225 Mg2+ binding site [ion binding]; other site 1111068005226 G-X-G motif; other site 1111068005227 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1111068005228 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 1111068005229 active site 1111068005230 phosphorylation site [posttranslational modification] 1111068005231 intermolecular recognition site; other site 1111068005232 dimerization interface [polypeptide binding]; other site 1111068005233 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 1111068005234 DNA binding site [nucleotide binding] 1111068005235 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1111068005236 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1111068005237 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 1111068005238 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 1111068005239 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1111068005240 Uncharacterized conserved protein [Function unknown]; Region: COG3402 1111068005241 Predicted membrane protein [Function unknown]; Region: COG3428 1111068005242 Bacterial PH domain; Region: DUF304; pfam03703 1111068005243 Bacterial PH domain; Region: DUF304; pfam03703 1111068005244 Bacterial PH domain; Region: DUF304; pfam03703 1111068005245 LysE type translocator; Region: LysE; cl00565 1111068005246 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1111068005247 Probable transposase; Region: OrfB_IS605; pfam01385 1111068005248 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068005249 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1111068005250 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1111068005251 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1111068005252 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1111068005253 dimer interface [polypeptide binding]; other site 1111068005254 active site 1111068005255 heme binding site [chemical binding]; other site 1111068005256 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1111068005257 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 1111068005258 nudix motif; other site 1111068005259 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1111068005260 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 1111068005261 putative DNA binding site [nucleotide binding]; other site 1111068005262 putative Zn2+ binding site [ion binding]; other site 1111068005263 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068005264 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068005265 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1111068005266 Period protein 2/3C-terminal region; Region: Period_C; pfam12114 1111068005267 Winged helix-turn helix; Region: HTH_29; pfam13551 1111068005268 Homeodomain-like domain; Region: HTH_32; pfam13565 1111068005269 Integrase core domain; Region: rve; pfam00665 1111068005270 Integrase core domain; Region: rve_3; pfam13683 1111068005271 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1111068005272 Integrase core domain; Region: rve; pfam00665 1111068005273 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068005274 Winged helix-turn helix; Region: HTH_29; pfam13551 1111068005275 Homeodomain-like domain; Region: HTH_32; pfam13565 1111068005276 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1111068005277 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1111068005278 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1111068005279 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1111068005280 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 1111068005281 dimer interface [polypeptide binding]; other site 1111068005282 active site 1111068005283 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 1111068005284 active site 1111068005285 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1111068005286 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1111068005287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1111068005288 NAD(P) binding site [chemical binding]; other site 1111068005289 active site 1111068005290 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1111068005291 NAD(P) binding site [chemical binding]; other site 1111068005292 active site 1111068005293 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1111068005294 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 1111068005295 dimer interface [polypeptide binding]; other site 1111068005296 active site 1111068005297 CoA binding pocket [chemical binding]; other site 1111068005298 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 1111068005299 HAD-superfamily phosphatase, subfamily IIIC; Region: HAD-SF-IIIC; TIGR01681 1111068005300 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 1111068005301 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1111068005302 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1111068005303 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1111068005304 Down-regulated in metastasis; Region: DRIM; pfam07539 1111068005305 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1111068005306 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1111068005307 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 1111068005308 substrate binding site [chemical binding]; other site 1111068005309 oxyanion hole (OAH) forming residues; other site 1111068005310 trimer interface [polypeptide binding]; other site 1111068005311 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 1111068005312 hypothetical protein; Provisional; Region: PRK06185 1111068005313 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1111068005314 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068005315 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068005316 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1111068005317 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 1111068005318 Walker A motif; other site 1111068005319 ATP binding site [chemical binding]; other site 1111068005320 Walker B motif; other site 1111068005321 arginine finger; other site 1111068005322 Winged helix-turn helix; Region: HTH_29; pfam13551 1111068005323 Homeodomain-like domain; Region: HTH_32; pfam13565 1111068005324 Integrase core domain; Region: rve; pfam00665 1111068005325 Integrase core domain; Region: rve_3; pfam13683 1111068005326 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1111068005327 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1111068005328 DNA-binding interface [nucleotide binding]; DNA binding site 1111068005329 Integrase core domain; Region: rve; pfam00665 1111068005330 transposase/IS protein; Provisional; Region: PRK09183 1111068005331 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 1111068005332 Walker A motif; other site 1111068005333 ATP binding site [chemical binding]; other site 1111068005334 Walker B motif; other site 1111068005335 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068005336 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068005337 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068005338 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068005339 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068005340 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068005341 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068005342 DNA-directed RNA polymerase subunit A''; Provisional; Region: PRK14898 1111068005343 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 1111068005344 DHH family; Region: DHH; pfam01368 1111068005345 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1111068005346 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1111068005347 metal ion-dependent adhesion site (MIDAS); other site 1111068005348 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 1111068005349 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1111068005350 Walker A motif; other site 1111068005351 ATP binding site [chemical binding]; other site 1111068005352 Walker B motif; other site 1111068005353 arginine finger; other site 1111068005354 Replication terminator protein; Region: RTP; pfam02334 1111068005355 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1111068005356 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1111068005357 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1111068005358 putative active site [active] 1111068005359 putative substrate binding site [chemical binding]; other site 1111068005360 putative cosubstrate binding site; other site 1111068005361 catalytic site [active] 1111068005362 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1111068005363 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 1111068005364 heme-binding site [chemical binding]; other site 1111068005365 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 1111068005366 FAD binding pocket [chemical binding]; other site 1111068005367 FAD binding motif [chemical binding]; other site 1111068005368 phosphate binding motif [ion binding]; other site 1111068005369 beta-alpha-beta structure motif; other site 1111068005370 NAD binding pocket [chemical binding]; other site 1111068005371 Heme binding pocket [chemical binding]; other site 1111068005372 Transcriptional regulator; Region: Rrf2; cl17282 1111068005373 Predicted transcriptional regulator [Transcription]; Region: COG1959 1111068005374 spermidine synthase; Provisional; Region: PRK00811 1111068005375 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 1111068005376 S-adenosylmethionine binding site [chemical binding]; other site 1111068005377 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1111068005378 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1111068005379 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1111068005380 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1111068005381 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 1111068005382 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1111068005383 catalytic residue [active] 1111068005384 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 1111068005385 active site 1111068005386 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1111068005387 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 1111068005388 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1111068005389 DNA-binding site [nucleotide binding]; DNA binding site 1111068005390 UTRA domain; Region: UTRA; pfam07702 1111068005391 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1111068005392 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 1111068005393 Ca binding site [ion binding]; other site 1111068005394 active site 1111068005395 catalytic site [active] 1111068005396 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 1111068005397 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 1111068005398 active site turn [active] 1111068005399 phosphorylation site [posttranslational modification] 1111068005400 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1111068005401 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1111068005402 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg1; cd04764 1111068005403 DNA binding residues [nucleotide binding] 1111068005404 PilZ domain; Region: PilZ; pfam07238 1111068005405 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1111068005406 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 1111068005407 CAP-like domain; other site 1111068005408 active site 1111068005409 primary dimer interface [polypeptide binding]; other site 1111068005410 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1111068005411 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1111068005412 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1111068005413 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1111068005414 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 1111068005415 ATP binding site [chemical binding]; other site 1111068005416 Mg2+ binding site [ion binding]; other site 1111068005417 G-X-G motif; other site 1111068005418 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 1111068005419 anchoring element; other site 1111068005420 dimer interface [polypeptide binding]; other site 1111068005421 ATP binding site [chemical binding]; other site 1111068005422 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 1111068005423 active site 1111068005424 putative metal-binding site [ion binding]; other site 1111068005425 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1111068005426 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1111068005427 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1111068005428 ABC1 family; Region: ABC1; pfam03109 1111068005429 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 1111068005430 active site 1111068005431 ATP binding site [chemical binding]; other site 1111068005432 Uncharacterized conserved protein [Function unknown]; Region: COG3937 1111068005433 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1111068005434 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 1111068005435 bile acid transporter; Region: bass; TIGR00841 1111068005436 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 1111068005437 putative substrate binding pocket [chemical binding]; other site 1111068005438 AC domain interface; other site 1111068005439 catalytic triad [active] 1111068005440 AB domain interface; other site 1111068005441 interchain disulfide; other site 1111068005442 Predicted membrane protein [Function unknown]; Region: COG3817 1111068005443 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1111068005444 Protein of unknown function (DUF969); Region: DUF969; pfam06149 1111068005445 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1111068005446 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 1111068005447 Moco binding site; other site 1111068005448 metal coordination site [ion binding]; other site 1111068005449 Predicted membrane protein [Function unknown]; Region: COG3601 1111068005450 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1111068005451 threonine synthase; Validated; Region: PRK08197 1111068005452 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 1111068005453 homodimer interface [polypeptide binding]; other site 1111068005454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068005455 catalytic residue [active] 1111068005456 peptidase T; Region: peptidase-T; TIGR01882 1111068005457 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1111068005458 metal binding site [ion binding]; metal-binding site 1111068005459 dimer interface [polypeptide binding]; other site 1111068005460 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1111068005461 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1111068005462 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068005463 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068005464 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1111068005465 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 1111068005466 putative active site [active] 1111068005467 putative metal binding site [ion binding]; other site 1111068005468 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1111068005469 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1111068005470 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1111068005471 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 1111068005472 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 1111068005473 S-adenosylmethionine binding site [chemical binding]; other site 1111068005474 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 1111068005475 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 1111068005476 Members of the SGNH-hydrolase superfamily, 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_YpmR_like; cd04506 1111068005477 active site 1111068005478 catalytic triad [active] 1111068005479 oxyanion hole [active] 1111068005480 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 1111068005481 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1111068005482 Cu(I) binding site [ion binding]; other site 1111068005483 EDD domain protein, DegV family; Region: DegV; TIGR00762 1111068005484 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1111068005485 Protein of unknown function (DUF2535); Region: DUF2535; pfam10751 1111068005486 threonine dehydratase; Validated; Region: PRK08639 1111068005487 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 1111068005488 tetramer interface [polypeptide binding]; other site 1111068005489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068005490 catalytic residue [active] 1111068005491 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1111068005492 putative Ile/Val binding site [chemical binding]; other site 1111068005493 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 1111068005494 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1111068005495 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 1111068005496 folate binding site [chemical binding]; other site 1111068005497 NADP+ binding site [chemical binding]; other site 1111068005498 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1111068005499 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 1111068005500 dimerization interface [polypeptide binding]; other site 1111068005501 active site 1111068005502 YpjP-like protein; Region: YpjP; pfam14005 1111068005503 aspartate aminotransferase; Provisional; Region: PRK07681 1111068005504 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 1111068005505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068005506 homodimer interface [polypeptide binding]; other site 1111068005507 catalytic residue [active] 1111068005508 YuzL-like protein; Region: YuzL; pfam14115 1111068005509 Disulphide isomerase; Region: Disulph_isomer; pfam06491 1111068005510 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 1111068005511 nudix motif; other site 1111068005512 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 1111068005513 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 1111068005514 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 1111068005515 Virulence factor; Region: Virulence_fact; pfam13769 1111068005516 HEAT repeats; Region: HEAT_2; pfam13646 1111068005517 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 1111068005518 HEAT repeats; Region: HEAT_2; pfam13646 1111068005519 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 1111068005520 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 1111068005521 catalytic residues [active] 1111068005522 dimer interface [polypeptide binding]; other site 1111068005523 homoserine O-succinyltransferase; Provisional; Region: PRK05368 1111068005524 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1111068005525 proposed active site lysine [active] 1111068005526 conserved cys residue [active] 1111068005527 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 1111068005528 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1111068005529 active site 1111068005530 SAM binding site [chemical binding]; other site 1111068005531 homodimer interface [polypeptide binding]; other site 1111068005532 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1111068005533 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1111068005534 putative dimer interface [polypeptide binding]; other site 1111068005535 active site pocket [active] 1111068005536 putative cataytic base [active] 1111068005537 cobyric acid synthase; Provisional; Region: PRK00784 1111068005538 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 1111068005539 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 1111068005540 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1111068005541 catalytic triad [active] 1111068005542 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1111068005543 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 1111068005544 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1111068005545 catalytic triad [active] 1111068005546 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 1111068005547 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1111068005548 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1111068005549 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1111068005550 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1111068005551 active site 1111068005552 SAM binding site [chemical binding]; other site 1111068005553 homodimer interface [polypeptide binding]; other site 1111068005554 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1111068005555 active site 1111068005556 SAM binding site [chemical binding]; other site 1111068005557 homodimer interface [polypeptide binding]; other site 1111068005558 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1111068005559 active site 1111068005560 putative homodimer interface [polypeptide binding]; other site 1111068005561 SAM binding site [chemical binding]; other site 1111068005562 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1111068005563 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 1111068005564 S-adenosylmethionine binding site [chemical binding]; other site 1111068005565 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1111068005566 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 1111068005567 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1111068005568 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1111068005569 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 1111068005570 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 1111068005571 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 1111068005572 putative active site [active] 1111068005573 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 1111068005574 putative active site [active] 1111068005575 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1111068005576 active site 1111068005577 SAM binding site [chemical binding]; other site 1111068005578 homodimer interface [polypeptide binding]; other site 1111068005579 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 1111068005580 High-affinity nickel-transport protein; Region: NicO; cl00964 1111068005581 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1111068005582 dimer interface [polypeptide binding]; other site 1111068005583 [2Fe-2S] cluster binding site [ion binding]; other site 1111068005584 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1111068005585 Aspartyl protease; Region: Asp_protease_2; pfam13650 1111068005586 inhibitor binding site; inhibition site 1111068005587 catalytic motif [active] 1111068005588 Catalytic residue [active] 1111068005589 Active site flap [active] 1111068005590 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1111068005591 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1111068005592 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1111068005593 active site 1111068005594 catalytic site [active] 1111068005595 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068005596 Coenzyme A binding pocket [chemical binding]; other site 1111068005597 DNA topoisomerase III; Provisional; Region: PRK07726 1111068005598 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 1111068005599 active site 1111068005600 putative interdomain interaction site [polypeptide binding]; other site 1111068005601 putative metal-binding site [ion binding]; other site 1111068005602 putative nucleotide binding site [chemical binding]; other site 1111068005603 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 1111068005604 domain I; other site 1111068005605 DNA binding groove [nucleotide binding] 1111068005606 phosphate binding site [ion binding]; other site 1111068005607 domain II; other site 1111068005608 domain III; other site 1111068005609 nucleotide binding site [chemical binding]; other site 1111068005610 catalytic site [active] 1111068005611 domain IV; other site 1111068005612 PADR1 (NUC008) domain; Region: PADR1; pfam08063 1111068005613 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1111068005614 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 1111068005615 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1111068005616 active site 1111068005617 catalytic tetrad [active] 1111068005618 oligoendopeptidase F; Region: pepF; TIGR00181 1111068005619 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1111068005620 active site 1111068005621 Zn binding site [ion binding]; other site 1111068005622 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1111068005623 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 1111068005624 active site 1111068005625 Isochorismatase family; Region: Isochorismatase; pfam00857 1111068005626 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 1111068005627 catalytic triad [active] 1111068005628 conserved cis-peptide bond; other site 1111068005629 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1111068005630 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1111068005631 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 1111068005632 putative active site [active] 1111068005633 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 1111068005634 TPR motif; other site 1111068005635 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1111068005636 binding surface 1111068005637 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 1111068005638 binding surface 1111068005639 TPR motif; other site 1111068005640 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 1111068005641 binding surface 1111068005642 TPR motif; other site 1111068005643 TPR repeat; Region: TPR_11; pfam13414 1111068005644 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1111068005645 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 1111068005646 TPR motif; other site 1111068005647 binding surface 1111068005648 TPR repeat; Region: TPR_11; pfam13414 1111068005649 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 1111068005650 binding surface 1111068005651 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1111068005652 TPR motif; other site 1111068005653 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 1111068005654 TPR motif; other site 1111068005655 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 1111068005656 binding surface 1111068005657 TPR repeat; Region: TPR_11; pfam13414 1111068005658 TPR motif; other site 1111068005659 Tetratricopeptide repeat; Region: TPR_9; pfam13371 1111068005660 Esterase/lipase [General function prediction only]; Region: COG1647 1111068005661 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1111068005662 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1111068005663 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1111068005664 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1111068005665 [4Fe-4S] binding site [ion binding]; other site 1111068005666 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 1111068005667 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 1111068005668 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 1111068005669 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 1111068005670 molybdopterin cofactor binding site; other site 1111068005671 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 1111068005672 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1111068005673 putative active site [active] 1111068005674 putative NTP binding site [chemical binding]; other site 1111068005675 putative nucleic acid binding site [nucleotide binding]; other site 1111068005676 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1111068005677 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 1111068005678 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1111068005679 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 1111068005680 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1111068005681 Hemerythrin-like domain; Region: Hr-like; cd12108 1111068005682 Fe binding site [ion binding]; other site 1111068005683 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1111068005684 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 1111068005685 active site 1111068005686 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068005687 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068005688 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1111068005689 Probable transposase; Region: OrfB_IS605; pfam01385 1111068005690 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068005691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 1111068005692 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 1111068005693 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 1111068005694 dimer interface [polypeptide binding]; other site 1111068005695 phosphorylation site [posttranslational modification] 1111068005696 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 1111068005697 ATP binding site [chemical binding]; other site 1111068005698 Mg2+ binding site [ion binding]; other site 1111068005699 G-X-G motif; other site 1111068005700 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 1111068005701 active site 1111068005702 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 1111068005703 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1111068005704 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1111068005705 Predicted membrane protein [Function unknown]; Region: COG3689 1111068005706 Predicted permeases [General function prediction only]; Region: COG0701 1111068005707 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1111068005708 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 1111068005709 active site 1111068005710 phosphorylation site [posttranslational modification] 1111068005711 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 1111068005712 active site 1111068005713 P-loop; other site 1111068005714 phosphorylation site [posttranslational modification] 1111068005715 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1111068005716 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1111068005717 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 1111068005718 putative substrate binding site [chemical binding]; other site 1111068005719 putative ATP binding site [chemical binding]; other site 1111068005720 Trp repressor protein; Region: Trp_repressor; cl17266 1111068005721 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1111068005722 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1111068005723 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1111068005724 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1111068005725 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1111068005726 metal binding site [ion binding]; metal-binding site 1111068005727 active site 1111068005728 I-site; other site 1111068005729 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1111068005730 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1111068005731 Zn2+ binding site [ion binding]; other site 1111068005732 Mg2+ binding site [ion binding]; other site 1111068005733 putative addiction module antidote; Region: doc_partner; TIGR02609 1111068005734 Fic/DOC family; Region: Fic; cl00960 1111068005735 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1111068005736 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1111068005737 G1 box; other site 1111068005738 GTP/Mg2+ binding site [chemical binding]; other site 1111068005739 Switch I region; other site 1111068005740 G2 box; other site 1111068005741 G3 box; other site 1111068005742 Switch II region; other site 1111068005743 G4 box; other site 1111068005744 G5 box; other site 1111068005745 Nucleoside recognition; Region: Gate; pfam07670 1111068005746 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1111068005747 Nucleoside recognition; Region: Gate; pfam07670 1111068005748 FeoA domain; Region: FeoA; pfam04023 1111068005749 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1111068005750 Sodium Bile acid symporter family; Region: SBF; pfam01758 1111068005751 Endonuclease I; Region: Endonuclease_1; pfam04231 1111068005752 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1111068005753 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1111068005754 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1111068005755 putative active site [active] 1111068005756 putative metal binding site [ion binding]; other site 1111068005757 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1111068005758 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1111068005759 DNA-binding site [nucleotide binding]; DNA binding site 1111068005760 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1111068005761 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1111068005762 beta-galactosidase; Region: BGL; TIGR03356 1111068005763 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1111068005764 PTS system, lactose/cellobiose family IIC component; Region: lacE; TIGR00410 1111068005765 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 1111068005766 active site 1111068005767 methionine cluster; other site 1111068005768 phosphorylation site [posttranslational modification] 1111068005769 metal binding site [ion binding]; metal-binding site 1111068005770 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1111068005771 active site 1111068005772 P-loop; other site 1111068005773 phosphorylation site [posttranslational modification] 1111068005774 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1111068005775 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1111068005776 DNA binding residues [nucleotide binding] 1111068005777 putative dimer interface [polypeptide binding]; other site 1111068005778 Protein of unknown function (DUF3940); Region: DUF3940; pfam13076 1111068005779 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1111068005780 MarR family; Region: MarR; pfam01047 1111068005781 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1111068005782 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 1111068005783 putative substrate translocation pore; other site 1111068005784 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 1111068005785 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1111068005786 [4Fe-4S] binding site [ion binding]; other site 1111068005787 molybdopterin cofactor binding site; other site 1111068005788 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 1111068005789 molybdopterin cofactor binding site; other site 1111068005790 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 1111068005791 [2Fe-2S] cluster binding site [ion binding]; other site 1111068005792 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1111068005793 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1111068005794 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1111068005795 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1111068005796 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1111068005797 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1111068005798 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1111068005799 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 1111068005800 active site 1111068005801 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1111068005802 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1111068005803 active site 1111068005804 NAD binding site [chemical binding]; other site 1111068005805 metal binding site [ion binding]; metal-binding site 1111068005806 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 1111068005807 Nitronate monooxygenase; Region: NMO; pfam03060 1111068005808 FMN binding site [chemical binding]; other site 1111068005809 substrate binding site [chemical binding]; other site 1111068005810 putative catalytic residue [active] 1111068005811 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1111068005812 N- and C-terminal domain interface [polypeptide binding]; other site 1111068005813 D-xylulose kinase; Region: XylB; TIGR01312 1111068005814 active site 1111068005815 MgATP binding site [chemical binding]; other site 1111068005816 catalytic site [active] 1111068005817 metal binding site [ion binding]; metal-binding site 1111068005818 xylulose binding site [chemical binding]; other site 1111068005819 homodimer interface [polypeptide binding]; other site 1111068005820 xylose isomerase; Provisional; Region: PRK05474 1111068005821 xylose isomerase; Region: xylose_isom_A; TIGR02630 1111068005822 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1111068005823 active site 1111068005824 catalytic residues [active] 1111068005825 L-arabinose isomerase; Provisional; Region: PRK02929 1111068005826 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 1111068005827 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 1111068005828 trimer interface [polypeptide binding]; other site 1111068005829 putative substrate binding site [chemical binding]; other site 1111068005830 putative metal binding site [ion binding]; other site 1111068005831 ribulokinase; Provisional; Region: PRK04123 1111068005832 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 1111068005833 N- and C-terminal domain interface [polypeptide binding]; other site 1111068005834 active site 1111068005835 MgATP binding site [chemical binding]; other site 1111068005836 catalytic site [active] 1111068005837 metal binding site [ion binding]; metal-binding site 1111068005838 carbohydrate binding site [chemical binding]; other site 1111068005839 homodimer interface [polypeptide binding]; other site 1111068005840 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1111068005841 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1111068005842 intersubunit interface [polypeptide binding]; other site 1111068005843 active site 1111068005844 Zn2+ binding site [ion binding]; other site 1111068005845 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1111068005846 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1111068005847 DNA-binding site [nucleotide binding]; DNA binding site 1111068005848 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1111068005849 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 1111068005850 putative dimerization interface [polypeptide binding]; other site 1111068005851 putative ligand binding site [chemical binding]; other site 1111068005852 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068005853 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068005854 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068005855 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1111068005856 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068005857 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1111068005858 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1111068005859 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1111068005860 TM-ABC transporter signature motif; other site 1111068005861 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1111068005862 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1111068005863 Walker A/P-loop; other site 1111068005864 ATP binding site [chemical binding]; other site 1111068005865 Q-loop/lid; other site 1111068005866 ABC transporter signature motif; other site 1111068005867 Walker B; other site 1111068005868 D-loop; other site 1111068005869 H-loop/switch region; other site 1111068005870 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1111068005871 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1111068005872 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1111068005873 putative ligand binding site [chemical binding]; other site 1111068005874 Response regulator receiver domain; Region: Response_reg; pfam00072 1111068005875 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 1111068005876 active site 1111068005877 phosphorylation site [posttranslational modification] 1111068005878 intermolecular recognition site; other site 1111068005879 dimerization interface [polypeptide binding]; other site 1111068005880 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1111068005881 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1111068005882 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1111068005883 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 1111068005884 dimerization interface [polypeptide binding]; other site 1111068005885 Histidine kinase; Region: His_kinase; pfam06580 1111068005886 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 1111068005887 ATP binding site [chemical binding]; other site 1111068005888 Mg2+ binding site [ion binding]; other site 1111068005889 G-X-G motif; other site 1111068005890 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1111068005891 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1111068005892 ligand binding site [chemical binding]; other site 1111068005893 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 1111068005894 substrate binding site [chemical binding]; other site 1111068005895 oxyanion hole (OAH) forming residues; other site 1111068005896 trimer interface [polypeptide binding]; other site 1111068005897 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1111068005898 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1111068005899 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1111068005900 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 1111068005901 NAD(P) binding site [chemical binding]; other site 1111068005902 catalytic residues [active] 1111068005903 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1111068005904 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068005905 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068005906 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1111068005907 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1111068005908 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1111068005909 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068005910 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068005911 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1111068005912 Integrase core domain; Region: rve; pfam00665 1111068005913 Integrase core domain; Region: rve_3; pfam13683 1111068005914 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1111068005915 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1111068005916 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 1111068005917 Walker A motif; other site 1111068005918 ATP binding site [chemical binding]; other site 1111068005919 Walker B motif; other site 1111068005920 arginine finger; other site 1111068005921 RHS protein; Region: RHS; pfam03527 1111068005922 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1111068005923 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068005924 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1111068005925 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068005926 Maltose acetyltransferase; Region: Mac; pfam12464 1111068005927 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 1111068005928 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1111068005929 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1111068005930 catalytic residue [active] 1111068005931 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 1111068005932 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1111068005933 putative substrate translocation pore; other site 1111068005934 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068005935 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1111068005936 Coenzyme A binding pocket [chemical binding]; other site 1111068005937 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1111068005938 GntP family permease; Region: GntP_permease; pfam02447 1111068005939 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 1111068005940 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 1111068005941 N- and C-terminal domain interface [polypeptide binding]; other site 1111068005942 active site 1111068005943 catalytic site [active] 1111068005944 metal binding site [ion binding]; metal-binding site 1111068005945 carbohydrate binding site [chemical binding]; other site 1111068005946 ATP binding site [chemical binding]; other site 1111068005947 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1111068005948 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1111068005949 DNA binding site [nucleotide binding] 1111068005950 domain linker motif; other site 1111068005951 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1111068005952 putative dimerization interface [polypeptide binding]; other site 1111068005953 putative ligand binding site [chemical binding]; other site 1111068005954 Predicted permeases [General function prediction only]; Region: COG0679 1111068005955 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1111068005956 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 1111068005957 active site 1111068005958 phosphorylation site [posttranslational modification] 1111068005959 intermolecular recognition site; other site 1111068005960 dimerization interface [polypeptide binding]; other site 1111068005961 Ndc10 component of the yeast centromere-binding factor 3; Region: Ndc10; cd11602 1111068005962 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1111068005963 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1111068005964 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 1111068005965 putative active site [active] 1111068005966 heme pocket [chemical binding]; other site 1111068005967 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 1111068005968 ATP binding site [chemical binding]; other site 1111068005969 Mg2+ binding site [ion binding]; other site 1111068005970 G-X-G motif; other site 1111068005971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1111068005972 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1111068005973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1111068005974 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1111068005975 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1111068005976 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1111068005977 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1111068005978 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 1111068005979 active site 1111068005980 phosphorylation site [posttranslational modification] 1111068005981 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1111068005982 HTH domain; Region: HTH_11; pfam08279 1111068005983 HTH domain; Region: HTH_11; pfam08279 1111068005984 PRD domain; Region: PRD; pfam00874 1111068005985 PRD domain; Region: PRD; pfam00874 1111068005986 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 1111068005987 active site 1111068005988 P-loop; other site 1111068005989 phosphorylation site [posttranslational modification] 1111068005990 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 1111068005991 active site 1111068005992 phosphorylation site [posttranslational modification] 1111068005993 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 1111068005994 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1111068005995 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 1111068005996 active site 1111068005997 P-loop; other site 1111068005998 phosphorylation site [posttranslational modification] 1111068005999 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 1111068006000 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 1111068006001 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 1111068006002 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068006003 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1111068006004 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1111068006005 tetrameric interface [polypeptide binding]; other site 1111068006006 NAD binding site [chemical binding]; other site 1111068006007 catalytic residues [active] 1111068006008 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1111068006009 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1111068006010 active site 1111068006011 NAD binding site [chemical binding]; other site 1111068006012 metal binding site [ion binding]; metal-binding site 1111068006013 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 1111068006014 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 1111068006015 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1111068006016 Walker A motif; other site 1111068006017 ATP binding site [chemical binding]; other site 1111068006018 Walker B motif; other site 1111068006019 arginine finger; other site 1111068006020 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 1111068006021 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1111068006022 active site 1111068006023 catalytic tetrad [active] 1111068006024 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1111068006025 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1111068006026 Walker A/P-loop; other site 1111068006027 ATP binding site [chemical binding]; other site 1111068006028 Q-loop/lid; other site 1111068006029 ABC transporter signature motif; other site 1111068006030 Walker B; other site 1111068006031 D-loop; other site 1111068006032 H-loop/switch region; other site 1111068006033 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1111068006034 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 1111068006035 substrate binding pocket [chemical binding]; other site 1111068006036 membrane-bound complex binding site; other site 1111068006037 hinge residues; other site 1111068006038 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1111068006039 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 1111068006040 dimer interface [polypeptide binding]; other site 1111068006041 conserved gate region; other site 1111068006042 putative PBP binding loops; other site 1111068006043 ABC-ATPase subunit interface; other site 1111068006044 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 1111068006045 dimer interface [polypeptide binding]; other site 1111068006046 conserved gate region; other site 1111068006047 putative PBP binding loops; other site 1111068006048 ABC-ATPase subunit interface; other site 1111068006049 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1111068006050 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 1111068006051 ATP binding site [chemical binding]; other site 1111068006052 G-X-G motif; other site 1111068006053 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1111068006054 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 1111068006055 active site 1111068006056 phosphorylation site [posttranslational modification] 1111068006057 intermolecular recognition site; other site 1111068006058 dimerization interface [polypeptide binding]; other site 1111068006059 YcbB domain; Region: YcbB; pfam08664 1111068006060 Uncharacterized conserved protein [Function unknown]; Region: COG3589 1111068006061 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1111068006062 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 1111068006063 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 1111068006064 active site turn [active] 1111068006065 phosphorylation site [posttranslational modification] 1111068006066 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1111068006067 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1111068006068 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 1111068006069 putative active site [active] 1111068006070 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1111068006071 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1111068006072 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 1111068006073 putative active site [active] 1111068006074 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1111068006075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1111068006076 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1111068006077 NAD(P) binding site [chemical binding]; other site 1111068006078 active site 1111068006079 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 1111068006080 aromatic arch; other site 1111068006081 DCoH dimer interaction site [polypeptide binding]; other site 1111068006082 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1111068006083 DCoH tetramer interaction site [polypeptide binding]; other site 1111068006084 substrate binding site [chemical binding]; other site 1111068006085 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 1111068006086 putative active site [active] 1111068006087 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1111068006088 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 1111068006089 active site 1111068006090 catalytic triad [active] 1111068006091 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1111068006092 Sodium Bile acid symporter family; Region: SBF; cl17470 1111068006093 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1111068006094 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 1111068006095 active site 1111068006096 catalytic site [active] 1111068006097 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1111068006098 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1111068006099 putative active site [active] 1111068006100 putative metal binding site [ion binding]; other site 1111068006101 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068006102 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1111068006103 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1111068006104 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1111068006105 MULE transposase domain; Region: MULE; pfam10551 1111068006106 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1111068006107 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1111068006108 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1111068006109 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 1111068006110 dimer interface [polypeptide binding]; other site 1111068006111 conserved gate region; other site 1111068006112 putative PBP binding loops; other site 1111068006113 ABC-ATPase subunit interface; other site 1111068006114 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1111068006115 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 1111068006116 dimer interface [polypeptide binding]; other site 1111068006117 conserved gate region; other site 1111068006118 putative PBP binding loops; other site 1111068006119 ABC-ATPase subunit interface; other site 1111068006120 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1111068006121 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1111068006122 Walker A/P-loop; other site 1111068006123 ATP binding site [chemical binding]; other site 1111068006124 Q-loop/lid; other site 1111068006125 ABC transporter signature motif; other site 1111068006126 Walker B; other site 1111068006127 D-loop; other site 1111068006128 H-loop/switch region; other site 1111068006129 TOBE domain; Region: TOBE_2; pfam08402 1111068006130 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1111068006131 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 1111068006132 putative substrate translocation pore; other site 1111068006133 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 1111068006134 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1111068006135 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068006136 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1111068006137 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 1111068006138 trimer interface [polypeptide binding]; other site 1111068006139 putative metal binding site [ion binding]; other site 1111068006140 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1111068006141 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 1111068006142 alpha subunit interface [polypeptide binding]; other site 1111068006143 TPP binding site [chemical binding]; other site 1111068006144 heterodimer interface [polypeptide binding]; other site 1111068006145 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1111068006146 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1111068006147 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 1111068006148 TPP-binding site [chemical binding]; other site 1111068006149 tetramer interface [polypeptide binding]; other site 1111068006150 heterodimer interface [polypeptide binding]; other site 1111068006151 phosphorylation loop region [posttranslational modification] 1111068006152 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1111068006153 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1111068006154 Walker A/P-loop; other site 1111068006155 ATP binding site [chemical binding]; other site 1111068006156 Q-loop/lid; other site 1111068006157 ABC transporter signature motif; other site 1111068006158 Walker B; other site 1111068006159 D-loop; other site 1111068006160 H-loop/switch region; other site 1111068006161 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1111068006162 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1111068006163 TM-ABC transporter signature motif; other site 1111068006164 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1111068006165 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1111068006166 zinc binding site [ion binding]; other site 1111068006167 putative ligand binding site [chemical binding]; other site 1111068006168 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1111068006169 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1111068006170 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1111068006171 NAD binding site [chemical binding]; other site 1111068006172 Phe binding site; other site 1111068006173 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1111068006174 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 1111068006175 FMN binding site [chemical binding]; other site 1111068006176 substrate binding site [chemical binding]; other site 1111068006177 putative catalytic residue [active] 1111068006178 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 1111068006179 PaaX-like protein; Region: PaaX; pfam07848 1111068006180 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 1111068006181 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1111068006182 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1111068006183 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 1111068006184 dimer interface [polypeptide binding]; other site 1111068006185 active site 1111068006186 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK09260 1111068006187 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1111068006188 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1111068006189 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1111068006190 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1111068006191 NAD(P) binding site [chemical binding]; other site 1111068006192 catalytic residues [active] 1111068006193 enoyl-CoA hydratase; Provisional; Region: PRK08140 1111068006194 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 1111068006195 substrate binding site [chemical binding]; other site 1111068006196 oxyanion hole (OAH) forming residues; other site 1111068006197 trimer interface [polypeptide binding]; other site 1111068006198 enoyl-CoA hydratase; Provisional; Region: PRK05862 1111068006199 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 1111068006200 substrate binding site [chemical binding]; other site 1111068006201 oxyanion hole (OAH) forming residues; other site 1111068006202 trimer interface [polypeptide binding]; other site 1111068006203 conserved hypothetical protein; Region: TIGR02118 1111068006204 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1111068006205 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1111068006206 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1111068006207 Phenylacetic acid degradation B; Region: PaaB; cl01371 1111068006208 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1111068006209 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1111068006210 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1111068006211 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1111068006212 acyl-activating enzyme (AAE) consensus motif; other site 1111068006213 AMP binding site [chemical binding]; other site 1111068006214 active site 1111068006215 CoA binding site [chemical binding]; other site 1111068006216 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1111068006217 gamma-glutamyl kinase; Provisional; Region: PRK05429 1111068006218 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 1111068006219 nucleotide binding site [chemical binding]; other site 1111068006220 homotetrameric interface [polypeptide binding]; other site 1111068006221 putative phosphate binding site [ion binding]; other site 1111068006222 putative allosteric binding site; other site 1111068006223 PUA domain; Region: PUA; pfam01472 1111068006224 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1111068006225 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1111068006226 putative catalytic cysteine [active] 1111068006227 Predicted membrane protein [Function unknown]; Region: COG2246 1111068006228 GtrA-like protein; Region: GtrA; pfam04138 1111068006229 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1111068006230 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1111068006231 Ligand binding site; other site 1111068006232 Putative Catalytic site; other site 1111068006233 DXD motif; other site 1111068006234 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1111068006235 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1111068006236 gp58-like protein; Region: Gp58; pfam07902 1111068006237 shikimate kinase; Reviewed; Region: aroK; PRK00131 1111068006238 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 1111068006239 ADP binding site [chemical binding]; other site 1111068006240 magnesium binding site [ion binding]; other site 1111068006241 putative shikimate binding site; other site 1111068006242 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1111068006243 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1111068006244 DNA binding site [nucleotide binding] 1111068006245 domain linker motif; other site 1111068006246 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 1111068006247 putative dimerization interface [polypeptide binding]; other site 1111068006248 putative ligand binding site [chemical binding]; other site 1111068006249 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1111068006250 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1111068006251 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1111068006252 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1111068006253 active site 1111068006254 catalytic residue [active] 1111068006255 dimer interface [polypeptide binding]; other site 1111068006256 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1111068006257 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1111068006258 Bacterial transcriptional regulator; Region: IclR; pfam01614 1111068006259 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 1111068006260 D-galactonate transporter; Region: 2A0114; TIGR00893 1111068006261 putative substrate translocation pore; other site 1111068006262 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1111068006263 DctM-like transporters; Region: DctM; pfam06808 1111068006264 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1111068006265 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1111068006266 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1111068006267 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1111068006268 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1111068006269 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1111068006270 PYR/PP interface [polypeptide binding]; other site 1111068006271 dimer interface [polypeptide binding]; other site 1111068006272 TPP binding site [chemical binding]; other site 1111068006273 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1111068006274 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1111068006275 TPP-binding site [chemical binding]; other site 1111068006276 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1111068006277 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1111068006278 NAD(P) binding site [chemical binding]; other site 1111068006279 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1111068006280 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 1111068006281 NAD(P) binding site [chemical binding]; other site 1111068006282 catalytic residues [active] 1111068006283 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1111068006284 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1111068006285 active site 1111068006286 oxalacetate binding site [chemical binding]; other site 1111068006287 citrylCoA binding site [chemical binding]; other site 1111068006288 coenzyme A binding site [chemical binding]; other site 1111068006289 catalytic triad [active] 1111068006290 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 1111068006291 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1111068006292 active site 1111068006293 motif I; other site 1111068006294 motif II; other site 1111068006295 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1111068006296 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 1111068006297 Predicted membrane protein [Function unknown]; Region: COG2510 1111068006298 CobD/Cbib protein; Region: CobD_Cbib; cl00561 1111068006299 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1111068006300 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 1111068006301 putative di-iron ligands [ion binding]; other site 1111068006302 Domain of unknown function DUF302; Region: DUF302; cl01364 1111068006303 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1111068006304 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 1111068006305 active site residue [active] 1111068006306 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1111068006307 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 1111068006308 CPxP motif; other site 1111068006309 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 1111068006310 active site residue [active] 1111068006311 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 1111068006312 active site residue [active] 1111068006313 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 1111068006314 active site residue [active] 1111068006315 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 1111068006316 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 1111068006317 CPxP motif; other site 1111068006318 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 1111068006319 putative homodimer interface [polypeptide binding]; other site 1111068006320 putative homotetramer interface [polypeptide binding]; other site 1111068006321 putative metal binding site [ion binding]; other site 1111068006322 putative homodimer-homodimer interface [polypeptide binding]; other site 1111068006323 putative allosteric switch controlling residues; other site 1111068006324 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 1111068006325 active site residue [active] 1111068006326 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 1111068006327 S-adenosylmethionine binding site [chemical binding]; other site 1111068006328 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 1111068006329 active site residue [active] 1111068006330 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1111068006331 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 1111068006332 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 1111068006333 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 1111068006334 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068006335 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068006336 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 1111068006337 active site 1111068006338 Domain of unknown function (DUF202); Region: DUF202; pfam02656 1111068006339 potential frameshift: common BLAST hit: gi|297529743|ref|YP_003671018.1| EmrB/QacA subfamily drug resistance transporter 1111068006340 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1111068006341 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1111068006342 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1111068006343 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 1111068006344 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1111068006345 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 1111068006346 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 1111068006347 active site 1111068006348 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1111068006349 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1111068006350 putative metal binding site; other site 1111068006351 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1111068006352 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 1111068006353 binding surface 1111068006354 TPR motif; other site 1111068006355 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 1111068006356 binding surface 1111068006357 TPR motif; other site 1111068006358 BclB C-terminal domain; Region: exospore_TM; TIGR03721 1111068006359 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1111068006360 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1111068006361 Probable transposase; Region: OrfB_IS605; pfam01385 1111068006362 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068006363 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1111068006364 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 1111068006365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068006366 catalytic residue [active] 1111068006367 hypothetical protein; Provisional; Region: PRK05463 1111068006368 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 1111068006369 PLD-like domain; Region: PLDc_2; pfam13091 1111068006370 putative homodimer interface [polypeptide binding]; other site 1111068006371 putative active site [active] 1111068006372 catalytic site [active] 1111068006373 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1111068006374 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 1111068006375 ATP binding site [chemical binding]; other site 1111068006376 putative Mg++ binding site [ion binding]; other site 1111068006377 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 1111068006378 nucleotide binding region [chemical binding]; other site 1111068006379 ATP-binding site [chemical binding]; other site 1111068006380 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 1111068006381 metal binding site [ion binding]; metal-binding site 1111068006382 Transposase IS200 like; Region: Y1_Tnp; cl00848 1111068006383 Probable transposase; Region: OrfB_IS605; pfam01385 1111068006384 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068006385 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1111068006386 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1111068006387 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1111068006388 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1111068006389 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1111068006390 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1111068006391 conserved cys residue [active] 1111068006392 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1111068006393 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1111068006394 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1111068006395 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1111068006396 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1111068006397 DNA binding site [nucleotide binding] 1111068006398 domain linker motif; other site 1111068006399 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1111068006400 dimerization interface [polypeptide binding]; other site 1111068006401 ligand binding site [chemical binding]; other site 1111068006402 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068006403 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1111068006404 Coenzyme A binding pocket [chemical binding]; other site 1111068006405 RRXRR protein; Region: RRXRR; pfam14239 1111068006406 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 1111068006407 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1111068006408 active site 1111068006409 metabolite-proton symporter; Region: 2A0106; TIGR00883 1111068006410 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 1111068006411 putative substrate translocation pore; other site 1111068006412 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1111068006413 active site 2 [active] 1111068006414 active site 1 [active] 1111068006415 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1111068006416 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 1111068006417 dimer interface [polypeptide binding]; other site 1111068006418 conserved gate region; other site 1111068006419 putative PBP binding loops; other site 1111068006420 ABC-ATPase subunit interface; other site 1111068006421 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 1111068006422 Apolipophorin-III precursor (apoLp-III); Region: ApoLp-III; pfam07464 1111068006423 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1111068006424 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 1111068006425 dimer interface [polypeptide binding]; other site 1111068006426 conserved gate region; other site 1111068006427 putative PBP binding loops; other site 1111068006428 ABC-ATPase subunit interface; other site 1111068006429 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1111068006430 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1111068006431 glutaminase; Provisional; Region: PRK00971 1111068006432 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1111068006433 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 1111068006434 putative active site [active] 1111068006435 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 1111068006436 putative active site [active] 1111068006437 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1111068006438 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 1111068006439 substrate-cofactor binding pocket; other site 1111068006440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068006441 catalytic residue [active] 1111068006442 acid-soluble spore protein H; Provisional; Region: sspH; PRK03174 1111068006443 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1111068006444 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 1111068006445 dimer interface [polypeptide binding]; other site 1111068006446 putative metal binding site [ion binding]; other site 1111068006447 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 1111068006448 Predicted integral membrane protein [Function unknown]; Region: COG5658 1111068006449 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 1111068006450 SdpI/YhfL protein family; Region: SdpI; pfam13630 1111068006451 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 1111068006452 dimerization interface [polypeptide binding]; other site 1111068006453 putative DNA binding site [nucleotide binding]; other site 1111068006454 putative Zn2+ binding site [ion binding]; other site 1111068006455 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1111068006456 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1111068006457 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1111068006458 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 1111068006459 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1111068006460 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 1111068006461 acyl-activating enzyme (AAE) consensus motif; other site 1111068006462 putative AMP binding site [chemical binding]; other site 1111068006463 putative active site [active] 1111068006464 putative CoA binding site [chemical binding]; other site 1111068006465 Predicted membrane protein [Function unknown]; Region: COG2259 1111068006466 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-1; TIGR02309 1111068006467 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 1111068006468 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1111068006469 Na binding site [ion binding]; other site 1111068006470 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1111068006471 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1111068006472 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1111068006473 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 1111068006474 binding surface 1111068006475 TPR motif; other site 1111068006476 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1111068006477 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1111068006478 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 1111068006479 putative dimer interface [polypeptide binding]; other site 1111068006480 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 1111068006481 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1111068006482 DNA binding site [nucleotide binding] 1111068006483 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 1111068006484 putative dimerization interface [polypeptide binding]; other site 1111068006485 putative ligand binding site [chemical binding]; other site 1111068006486 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1111068006487 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1111068006488 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 1111068006489 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1111068006490 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1111068006491 NAD binding site [chemical binding]; other site 1111068006492 homodimer interface [polypeptide binding]; other site 1111068006493 active site 1111068006494 substrate binding site [chemical binding]; other site 1111068006495 galactokinase; Provisional; Region: PRK05322 1111068006496 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1111068006497 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1111068006498 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1111068006499 EcsC protein family; Region: EcsC; pfam12787 1111068006500 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 1111068006501 Melibiase; Region: Melibiase; pfam02065 1111068006502 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1111068006503 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 1111068006504 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1111068006505 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 1111068006506 dimerization interface [polypeptide binding]; other site 1111068006507 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 1111068006508 dimer interface [polypeptide binding]; other site 1111068006509 phosphorylation site [posttranslational modification] 1111068006510 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 1111068006511 ATP binding site [chemical binding]; other site 1111068006512 Mg2+ binding site [ion binding]; other site 1111068006513 G-X-G motif; other site 1111068006514 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1111068006515 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 1111068006516 active site 1111068006517 phosphorylation site [posttranslational modification] 1111068006518 intermolecular recognition site; other site 1111068006519 dimerization interface [polypeptide binding]; other site 1111068006520 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 1111068006521 DNA binding site [nucleotide binding] 1111068006522 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1111068006523 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 1111068006524 putative dimer interface [polypeptide binding]; other site 1111068006525 YppG-like protein; Region: YppG; pfam14179 1111068006526 YppF-like protein; Region: YppF; pfam14178 1111068006527 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 1111068006528 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 1111068006529 Transglycosylase; Region: Transgly; pfam00912 1111068006530 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1111068006531 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1111068006532 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 1111068006533 Interdomain contacts; other site 1111068006534 Cytokine receptor motif; other site 1111068006535 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1111068006536 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1111068006537 minor groove reading motif; other site 1111068006538 helix-hairpin-helix signature motif; other site 1111068006539 substrate binding pocket [chemical binding]; other site 1111068006540 active site 1111068006541 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1111068006542 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1111068006543 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1111068006544 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 1111068006545 putative dimer interface [polypeptide binding]; other site 1111068006546 putative anticodon binding site; other site 1111068006547 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 1111068006548 homodimer interface [polypeptide binding]; other site 1111068006549 motif 1; other site 1111068006550 motif 2; other site 1111068006551 active site 1111068006552 motif 3; other site 1111068006553 aspartate aminotransferase; Provisional; Region: PRK05764 1111068006554 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 1111068006555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068006556 homodimer interface [polypeptide binding]; other site 1111068006557 catalytic residue [active] 1111068006558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 1111068006559 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 1111068006560 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 1111068006561 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1111068006562 active site 1111068006563 catalytic site [active] 1111068006564 substrate binding site [chemical binding]; other site 1111068006565 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 1111068006566 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1111068006567 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1111068006568 tetramerization interface [polypeptide binding]; other site 1111068006569 active site 1111068006570 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1111068006571 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1111068006572 active site 1111068006573 ATP-binding site [chemical binding]; other site 1111068006574 pantoate-binding site; other site 1111068006575 HXXH motif; other site 1111068006576 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 1111068006577 oligomerization interface [polypeptide binding]; other site 1111068006578 active site 1111068006579 metal binding site [ion binding]; metal-binding site 1111068006580 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1111068006581 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1111068006582 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1111068006583 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1111068006584 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1111068006585 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1111068006586 active site 1111068006587 NTP binding site [chemical binding]; other site 1111068006588 metal binding triad [ion binding]; metal-binding site 1111068006589 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1111068006590 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1111068006591 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 1111068006592 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 1111068006593 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 1111068006594 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 1111068006595 active site 1111068006596 dimer interfaces [polypeptide binding]; other site 1111068006597 catalytic residues [active] 1111068006598 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1111068006599 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1111068006600 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1111068006601 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 1111068006602 homodimer interface [polypeptide binding]; other site 1111068006603 metal binding site [ion binding]; metal-binding site 1111068006604 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1111068006605 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1111068006606 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1111068006607 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1111068006608 sporulation protein YpjB; Region: spore_ypjB; TIGR02878 1111068006609 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 1111068006610 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 1111068006611 intrachain domain interface; other site 1111068006612 Qi binding site; other site 1111068006613 Qo binding site; other site 1111068006614 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1111068006615 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1111068006616 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1111068006617 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 1111068006618 interchain domain interface [polypeptide binding]; other site 1111068006619 intrachain domain interface; other site 1111068006620 heme bH binding site [chemical binding]; other site 1111068006621 Qi binding site; other site 1111068006622 heme bL binding site [chemical binding]; other site 1111068006623 Qo binding site; other site 1111068006624 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1111068006625 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 1111068006626 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 1111068006627 iron-sulfur cluster [ion binding]; other site 1111068006628 [2Fe-2S] cluster binding site [ion binding]; other site 1111068006629 Protein of unknown function (DUF2487); Region: DUF2487; pfam10673 1111068006630 hypothetical protein; Provisional; Region: PRK03636 1111068006631 UPF0302 domain; Region: UPF0302; pfam08864 1111068006632 IDEAL domain; Region: IDEAL; pfam08858 1111068006633 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 1111068006634 binding surface 1111068006635 TPR motif; other site 1111068006636 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 1111068006637 binding surface 1111068006638 TPR motif; other site 1111068006639 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1111068006640 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 1111068006641 hinge; other site 1111068006642 active site 1111068006643 prephenate dehydrogenase; Validated; Region: PRK06545 1111068006644 prephenate dehydrogenase; Validated; Region: PRK08507 1111068006645 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1111068006646 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 1111068006647 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 1111068006648 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068006649 homodimer interface [polypeptide binding]; other site 1111068006650 catalytic residue [active] 1111068006651 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 1111068006652 substrate binding site [chemical binding]; other site 1111068006653 active site 1111068006654 catalytic residues [active] 1111068006655 heterodimer interface [polypeptide binding]; other site 1111068006656 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1111068006657 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 1111068006658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068006659 catalytic residue [active] 1111068006660 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 1111068006661 active site 1111068006662 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 1111068006663 active site 1111068006664 ribulose/triose binding site [chemical binding]; other site 1111068006665 phosphate binding site [ion binding]; other site 1111068006666 substrate (anthranilate) binding pocket [chemical binding]; other site 1111068006667 product (indole) binding pocket [chemical binding]; other site 1111068006668 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1111068006669 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1111068006670 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1111068006671 anthranilate synthase component I; Provisional; Region: PRK13569 1111068006672 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1111068006673 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1111068006674 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 1111068006675 homotrimer interaction site [polypeptide binding]; other site 1111068006676 active site 1111068006677 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1111068006678 active site 1111068006679 dimer interface [polypeptide binding]; other site 1111068006680 metal binding site [ion binding]; metal-binding site 1111068006681 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1111068006682 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1111068006683 Tetramer interface [polypeptide binding]; other site 1111068006684 active site 1111068006685 FMN-binding site [chemical binding]; other site 1111068006686 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1111068006687 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1111068006688 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 1111068006689 S-adenosylmethionine binding site [chemical binding]; other site 1111068006690 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 1111068006691 active site 1111068006692 multimer interface [polypeptide binding]; other site 1111068006693 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1111068006694 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1111068006695 substrate binding pocket [chemical binding]; other site 1111068006696 chain length determination region; other site 1111068006697 substrate-Mg2+ binding site; other site 1111068006698 catalytic residues [active] 1111068006699 aspartate-rich region 1; other site 1111068006700 active site lid residues [active] 1111068006701 aspartate-rich region 2; other site 1111068006702 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1111068006703 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 1111068006704 S-adenosylmethionine binding site [chemical binding]; other site 1111068006705 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 1111068006706 transcription attenuation protein MtrB; Provisional; Region: PRK13251 1111068006707 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1111068006708 homodecamer interface [polypeptide binding]; other site 1111068006709 GTP cyclohydrolase I; Provisional; Region: PLN03044 1111068006710 active site 1111068006711 putative catalytic site residues [active] 1111068006712 zinc binding site [ion binding]; other site 1111068006713 GTP-CH-I/GFRP interaction surface; other site 1111068006714 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 1111068006715 IHF dimer interface [polypeptide binding]; other site 1111068006716 IHF - DNA interface [nucleotide binding]; other site 1111068006717 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 1111068006718 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 1111068006719 Protein of unknown function (DUF2768); Region: DUF2768; pfam10966 1111068006720 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1111068006721 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1111068006722 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1111068006723 GTP-binding protein Der; Reviewed; Region: PRK00093 1111068006724 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1111068006725 G1 box; other site 1111068006726 GTP/Mg2+ binding site [chemical binding]; other site 1111068006727 Switch I region; other site 1111068006728 G2 box; other site 1111068006729 Switch II region; other site 1111068006730 G3 box; other site 1111068006731 G4 box; other site 1111068006732 G5 box; other site 1111068006733 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1111068006734 G1 box; other site 1111068006735 GTP/Mg2+ binding site [chemical binding]; other site 1111068006736 Switch I region; other site 1111068006737 G2 box; other site 1111068006738 G3 box; other site 1111068006739 Switch II region; other site 1111068006740 G4 box; other site 1111068006741 G5 box; other site 1111068006742 YIEGIA protein; Region: YIEGIA; pfam14045 1111068006743 YpzI-like protein; Region: YpzI; pfam14140 1111068006744 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1111068006745 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 1111068006746 RNA binding site [nucleotide binding]; other site 1111068006747 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 1111068006748 RNA binding site [nucleotide binding]; other site 1111068006749 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 1111068006750 RNA binding site [nucleotide binding]; other site 1111068006751 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 1111068006752 RNA binding site [nucleotide binding]; other site 1111068006753 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1111068006754 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1111068006755 putative acyl-acceptor binding pocket; other site 1111068006756 cytidylate kinase; Provisional; Region: cmk; PRK00023 1111068006757 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 1111068006758 CMP-binding site; other site 1111068006759 The sites determining sugar specificity; other site 1111068006760 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1111068006761 Flagellar protein YcgR; Region: YcgR_2; pfam12945 1111068006762 PilZ domain; Region: PilZ; pfam07238 1111068006763 germination protein YpeB; Region: spore_YpeB; TIGR02889 1111068006764 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 1111068006765 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1111068006766 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1111068006767 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 1111068006768 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1111068006769 active site 1111068006770 homotetramer interface [polypeptide binding]; other site 1111068006771 homodimer interface [polypeptide binding]; other site 1111068006772 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 1111068006773 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1111068006774 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1111068006775 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1111068006776 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1111068006777 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1111068006778 NAD(P) binding site [chemical binding]; other site 1111068006779 adaptor protein; Provisional; Region: PRK02899 1111068006780 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 1111068006781 CotJB protein; Region: CotJB; pfam12652 1111068006782 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1111068006783 dimanganese center [ion binding]; other site 1111068006784 Protein of unknown function (DUF2663); Region: DUF2663; pfam10864 1111068006785 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068006786 CAAX protease self-immunity; Region: Abi; pfam02517 1111068006787 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1111068006788 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 1111068006789 ATP binding site [chemical binding]; other site 1111068006790 putative Mg++ binding site [ion binding]; other site 1111068006791 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 1111068006792 nucleotide binding region [chemical binding]; other site 1111068006793 ATP-binding site [chemical binding]; other site 1111068006794 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 1111068006795 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1111068006796 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1111068006797 dimer interface [polypeptide binding]; other site 1111068006798 substrate binding site [chemical binding]; other site 1111068006799 metal binding sites [ion binding]; metal-binding site 1111068006800 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1111068006801 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1111068006802 ligand binding site [chemical binding]; other site 1111068006803 NAD binding site [chemical binding]; other site 1111068006804 dimerization interface [polypeptide binding]; other site 1111068006805 catalytic site [active] 1111068006806 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1111068006807 putative L-serine binding site [chemical binding]; other site 1111068006808 histidinol-phosphatase; Provisional; Region: PRK07328 1111068006809 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 1111068006810 active site 1111068006811 dimer interface [polypeptide binding]; other site 1111068006812 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 1111068006813 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1111068006814 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 1111068006815 DNA binding residues [nucleotide binding] 1111068006816 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1111068006817 ATP binding site [chemical binding]; other site 1111068006818 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1111068006819 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 1111068006820 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 1111068006821 catalytic core [active] 1111068006822 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1111068006823 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 1111068006824 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1111068006825 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 1111068006826 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068006827 homodimer interface [polypeptide binding]; other site 1111068006828 catalytic residue [active] 1111068006829 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1111068006830 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1111068006831 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1111068006832 Walker A/P-loop; other site 1111068006833 ATP binding site [chemical binding]; other site 1111068006834 Q-loop/lid; other site 1111068006835 ABC transporter signature motif; other site 1111068006836 Walker B; other site 1111068006837 D-loop; other site 1111068006838 H-loop/switch region; other site 1111068006839 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 1111068006840 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1111068006841 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 1111068006842 putative PBP binding regions; other site 1111068006843 ABC-ATPase subunit interface; other site 1111068006844 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1111068006845 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 1111068006846 putative binding site residues; other site 1111068006847 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 1111068006848 pentamer interface [polypeptide binding]; other site 1111068006849 dodecaamer interface [polypeptide binding]; other site 1111068006850 YvbH-like oligomerisation region; Region: YvbH_ext; pfam11724 1111068006851 amino acid transporter; Region: 2A0306; TIGR00909 1111068006852 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 1111068006853 Histidine kinase; Region: His_kinase; pfam06580 1111068006854 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 1111068006855 phosphate binding site [ion binding]; other site 1111068006856 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1111068006857 PTS system, glucose-like IIB component; Region: EIIB_glc; TIGR00826 1111068006858 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 1111068006859 active site turn [active] 1111068006860 phosphorylation site [posttranslational modification] 1111068006861 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1111068006862 Probable transposase; Region: OrfB_IS605; pfam01385 1111068006863 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068006864 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1111068006865 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1111068006866 DNA-binding site [nucleotide binding]; DNA binding site 1111068006867 UTRA domain; Region: UTRA; pfam07702 1111068006868 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1111068006869 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 1111068006870 active site 1111068006871 trimer interface [polypeptide binding]; other site 1111068006872 allosteric site; other site 1111068006873 active site lid [active] 1111068006874 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1111068006875 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1111068006876 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 1111068006877 active site 1111068006878 dimer interface [polypeptide binding]; other site 1111068006879 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1111068006880 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 1111068006881 dimerization interface [polypeptide binding]; other site 1111068006882 PAS domain; Region: PAS; smart00091 1111068006883 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 1111068006884 dimer interface [polypeptide binding]; other site 1111068006885 phosphorylation site [posttranslational modification] 1111068006886 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 1111068006887 ATP binding site [chemical binding]; other site 1111068006888 Mg2+ binding site [ion binding]; other site 1111068006889 G-X-G motif; other site 1111068006890 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1111068006891 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 1111068006892 active site 1111068006893 phosphorylation site [posttranslational modification] 1111068006894 intermolecular recognition site; other site 1111068006895 dimerization interface [polypeptide binding]; other site 1111068006896 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 1111068006897 DNA binding site [nucleotide binding] 1111068006898 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1111068006899 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1111068006900 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1111068006901 Double zinc ribbon; Region: DZR; pfam12773 1111068006902 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 1111068006903 ResB-like family; Region: ResB; pfam05140 1111068006904 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 1111068006905 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1111068006906 catalytic residues [active] 1111068006907 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1111068006908 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 1111068006909 RNA binding surface [nucleotide binding]; other site 1111068006910 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1111068006911 active site 1111068006912 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1111068006913 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1111068006914 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1111068006915 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1111068006916 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1111068006917 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1111068006918 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1111068006919 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 1111068006920 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1111068006921 Domain of unknown function (DUF309); Region: DUF309; pfam03745 1111068006922 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068006923 Coenzyme A binding pocket [chemical binding]; other site 1111068006924 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 1111068006925 homopentamer interface [polypeptide binding]; other site 1111068006926 active site 1111068006927 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1111068006928 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1111068006929 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 1111068006930 dimerization interface [polypeptide binding]; other site 1111068006931 active site 1111068006932 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1111068006933 Lumazine binding domain; Region: Lum_binding; pfam00677 1111068006934 Lumazine binding domain; Region: Lum_binding; pfam00677 1111068006935 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1111068006936 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 1111068006937 catalytic motif [active] 1111068006938 Zn binding site [ion binding]; other site 1111068006939 RibD C-terminal domain; Region: RibD_C; cl17279 1111068006940 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 1111068006941 active site 1111068006942 Predicted secreted protein [Function unknown]; Region: COG4086 1111068006943 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 1111068006944 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1111068006945 Probable transposase; Region: OrfB_IS605; pfam01385 1111068006946 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068006947 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068006948 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068006949 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068006950 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1111068006951 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1111068006952 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1111068006953 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 1111068006954 metal-binding site [ion binding] 1111068006955 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1111068006956 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1111068006957 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 1111068006958 dimerization interface [polypeptide binding]; other site 1111068006959 putative DNA binding site [nucleotide binding]; other site 1111068006960 putative Zn2+ binding site [ion binding]; other site 1111068006961 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1111068006962 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1111068006963 active site 1111068006964 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1111068006965 substrate binding site [chemical binding]; other site 1111068006966 catalytic residues [active] 1111068006967 dimer interface [polypeptide binding]; other site 1111068006968 YcaO domain protein; Region: TIGR03549 1111068006969 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1111068006970 Stage V sporulation protein AE1; Region: SpoVAE; pfam14097 1111068006971 SpoVA protein; Region: SpoVA; pfam03862 1111068006972 stage V sporulation protein AD; Validated; Region: PRK08304 1111068006973 stage V sporulation protein AD; Provisional; Region: PRK12404 1111068006974 SpoVA protein; Region: SpoVA; cl04298 1111068006975 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 1111068006976 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 1111068006977 sporulation sigma factor SigF; Validated; Region: PRK05572 1111068006978 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1111068006979 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1111068006980 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 1111068006981 DNA binding residues [nucleotide binding] 1111068006982 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 1111068006983 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 1111068006984 ATP binding site [chemical binding]; other site 1111068006985 Mg2+ binding site [ion binding]; other site 1111068006986 G-X-G motif; other site 1111068006987 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; cd06844 1111068006988 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1111068006989 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1111068006990 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1111068006991 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 1111068006992 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1111068006993 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1111068006994 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1111068006995 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1111068006996 phosphopentomutase; Provisional; Region: PRK05362 1111068006997 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1111068006998 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1111068006999 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 1111068007000 active site 1111068007001 Int/Topo IB signature motif; other site 1111068007002 Protein of unknown function (DUF4227); Region: DUF4227; pfam14004 1111068007003 ferric uptake regulator; Provisional; Region: fur; PRK09462 1111068007004 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1111068007005 metal binding site 2 [ion binding]; metal-binding site 1111068007006 putative DNA binding helix; other site 1111068007007 metal binding site 1 [ion binding]; metal-binding site 1111068007008 dimer interface [polypeptide binding]; other site 1111068007009 structural Zn2+ binding site [ion binding]; other site 1111068007010 stage II sporulation protein M; Region: spo_II_M; TIGR02831 1111068007011 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 1111068007012 PHP-associated; Region: PHP_C; pfam13263 1111068007013 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 1111068007014 dimer interface [polypeptide binding]; other site 1111068007015 ADP-ribose binding site [chemical binding]; other site 1111068007016 active site 1111068007017 nudix motif; other site 1111068007018 metal binding site [ion binding]; metal-binding site 1111068007019 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 1111068007020 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1111068007021 active site 1111068007022 catalytic tetrad [active] 1111068007023 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1111068007024 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 1111068007025 putative substrate translocation pore; other site 1111068007026 Protein of unknown function (DUF2552); Region: DUF2552; pfam10827 1111068007027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 1111068007028 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 1111068007029 YqzH-like protein; Region: YqzH; pfam14164 1111068007030 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1111068007031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1111068007032 NAD(P) binding site [chemical binding]; other site 1111068007033 active site 1111068007034 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1111068007035 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK07679 1111068007036 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1111068007037 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1111068007038 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 1111068007039 active site 1111068007040 FMN binding site [chemical binding]; other site 1111068007041 substrate binding site [chemical binding]; other site 1111068007042 homotetramer interface [polypeptide binding]; other site 1111068007043 catalytic residue [active] 1111068007044 ribonuclease Z; Region: RNase_Z; TIGR02651 1111068007045 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1111068007046 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1111068007047 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1111068007048 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1111068007049 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1111068007050 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 1111068007051 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1111068007052 beta-galactosidase; Region: BGL; TIGR03356 1111068007053 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1111068007054 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1111068007055 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1111068007056 G3 box; other site 1111068007057 Switch II region; other site 1111068007058 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1111068007059 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 1111068007060 active site 1111068007061 phosphorylation site [posttranslational modification] 1111068007062 intermolecular recognition site; other site 1111068007063 dimerization interface [polypeptide binding]; other site 1111068007064 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 1111068007065 DNA binding site [nucleotide binding] 1111068007066 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1111068007067 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 1111068007068 ATP binding site [chemical binding]; other site 1111068007069 Mg2+ binding site [ion binding]; other site 1111068007070 G-X-G motif; other site 1111068007071 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1111068007072 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1111068007073 Walker A/P-loop; other site 1111068007074 ATP binding site [chemical binding]; other site 1111068007075 Q-loop/lid; other site 1111068007076 ABC transporter signature motif; other site 1111068007077 Walker B; other site 1111068007078 D-loop; other site 1111068007079 H-loop/switch region; other site 1111068007080 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1111068007081 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1111068007082 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1111068007083 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1111068007084 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 1111068007085 peptidase T-like protein; Region: PepT-like; TIGR01883 1111068007086 metal binding site [ion binding]; metal-binding site 1111068007087 putative dimer interface [polypeptide binding]; other site 1111068007088 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 1111068007089 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1111068007090 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1111068007091 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1111068007092 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1111068007093 dimer interface [polypeptide binding]; other site 1111068007094 substrate binding site [chemical binding]; other site 1111068007095 metal binding site [ion binding]; metal-binding site 1111068007096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1111068007097 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1111068007098 Predicted membrane protein [Function unknown]; Region: COG4129 1111068007099 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 1111068007100 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 1111068007101 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1111068007102 YwpF-like protein; Region: YwpF; pfam14183 1111068007103 Disulphide isomerase; Region: Disulph_isomer; pfam06491 1111068007104 membrane ATPase/protein kinase; Provisional; Region: PRK09435 1111068007105 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 1111068007106 Walker A; other site 1111068007107 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 1111068007108 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 1111068007109 active site 1111068007110 substrate binding site [chemical binding]; other site 1111068007111 coenzyme B12 binding site [chemical binding]; other site 1111068007112 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 1111068007113 B12 binding site [chemical binding]; other site 1111068007114 cobalt ligand [ion binding]; other site 1111068007115 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 1111068007116 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 1111068007117 heterodimer interface [polypeptide binding]; other site 1111068007118 substrate interaction site [chemical binding]; other site 1111068007119 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 1111068007120 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 1111068007121 putative active site [active] 1111068007122 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1111068007123 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 1111068007124 dimerization interface [polypeptide binding]; other site 1111068007125 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 1111068007126 dimer interface [polypeptide binding]; other site 1111068007127 phosphorylation site [posttranslational modification] 1111068007128 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 1111068007129 ATP binding site [chemical binding]; other site 1111068007130 Mg2+ binding site [ion binding]; other site 1111068007131 G-X-G motif; other site 1111068007132 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1111068007133 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 1111068007134 active site 1111068007135 phosphorylation site [posttranslational modification] 1111068007136 intermolecular recognition site; other site 1111068007137 dimerization interface [polypeptide binding]; other site 1111068007138 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 1111068007139 DNA binding site [nucleotide binding] 1111068007140 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1111068007141 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1111068007142 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 1111068007143 2-oxoisovalerate dehydrogenase E2 component; Region: PLN02528 1111068007144 E3 interaction surface; other site 1111068007145 lipoyl attachment site [posttranslational modification]; other site 1111068007146 e3 binding domain; Region: E3_binding; pfam02817 1111068007147 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1111068007148 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1111068007149 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 1111068007150 alpha subunit interface [polypeptide binding]; other site 1111068007151 TPP binding site [chemical binding]; other site 1111068007152 heterodimer interface [polypeptide binding]; other site 1111068007153 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1111068007154 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1111068007155 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 1111068007156 tetramer interface [polypeptide binding]; other site 1111068007157 TPP-binding site [chemical binding]; other site 1111068007158 heterodimer interface [polypeptide binding]; other site 1111068007159 phosphorylation loop region [posttranslational modification] 1111068007160 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1111068007161 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1111068007162 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1111068007163 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1111068007164 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1111068007165 nucleotide binding site [chemical binding]; other site 1111068007166 Acetokinase family; Region: Acetate_kinase; cl17229 1111068007167 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1111068007168 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1111068007169 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1111068007170 NAD binding site [chemical binding]; other site 1111068007171 Phe binding site; other site 1111068007172 phosphate butyryltransferase; Validated; Region: PRK07742 1111068007173 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1111068007174 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 1111068007175 putative active site [active] 1111068007176 heme pocket [chemical binding]; other site 1111068007177 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 1111068007178 putative active site [active] 1111068007179 heme pocket [chemical binding]; other site 1111068007180 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 1111068007181 Walker A motif; other site 1111068007182 ATP binding site [chemical binding]; other site 1111068007183 Walker B motif; other site 1111068007184 arginine finger; other site 1111068007185 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1111068007186 Protein of unknown function (DUF2627); Region: DUF2627; pfam11118 1111068007187 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1111068007188 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 1111068007189 active site 1111068007190 catalytic site [active] 1111068007191 metal binding site [ion binding]; metal-binding site 1111068007192 dimer interface [polypeptide binding]; other site 1111068007193 YycC-like protein; Region: YycC; pfam14174 1111068007194 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 1111068007195 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1111068007196 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068007197 Coenzyme A binding pocket [chemical binding]; other site 1111068007198 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1111068007199 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068007200 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1111068007201 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1111068007202 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1111068007203 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1111068007204 MOSC domain; Region: MOSC; pfam03473 1111068007205 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1111068007206 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068007207 Coenzyme A binding pocket [chemical binding]; other site 1111068007208 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068007209 Coenzyme A binding pocket [chemical binding]; other site 1111068007210 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 1111068007211 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1111068007212 MULE transposase domain; Region: MULE; pfam10551 1111068007213 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1111068007214 MULE transposase domain; Region: MULE; pfam10551 1111068007215 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 1111068007216 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068007217 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068007218 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1111068007219 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 1111068007220 Winged helix-turn helix; Region: HTH_29; pfam13551 1111068007221 Homeodomain-like domain; Region: HTH_32; pfam13565 1111068007222 Integrase core domain; Region: rve; pfam00665 1111068007223 Integrase core domain; Region: rve_3; pfam13683 1111068007224 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1111068007225 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1111068007226 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 1111068007227 Walker A motif; other site 1111068007228 ATP binding site [chemical binding]; other site 1111068007229 Walker B motif; other site 1111068007230 arginine finger; other site 1111068007231 Period protein 2/3C-terminal region; Region: Period_C; pfam12114 1111068007232 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 1111068007233 active site 1111068007234 Int/Topo IB signature motif; other site 1111068007235 DNA binding site [nucleotide binding] 1111068007236 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 1111068007237 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 1111068007238 active site 1111068007239 phosphorylation site [posttranslational modification] 1111068007240 intermolecular recognition site; other site 1111068007241 dimerization interface [polypeptide binding]; other site 1111068007242 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 1111068007243 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 1111068007244 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 1111068007245 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 1111068007246 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1111068007247 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1111068007248 Walker A/P-loop; other site 1111068007249 ATP binding site [chemical binding]; other site 1111068007250 Q-loop/lid; other site 1111068007251 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1111068007252 ABC transporter signature motif; other site 1111068007253 Walker B; other site 1111068007254 D-loop; other site 1111068007255 H-loop/switch region; other site 1111068007256 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1111068007257 arginine repressor; Provisional; Region: PRK04280 1111068007258 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1111068007259 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1111068007260 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 1111068007261 RNA binding surface [nucleotide binding]; other site 1111068007262 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1111068007263 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 1111068007264 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 1111068007265 TPP-binding site; other site 1111068007266 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 1111068007267 PYR/PP interface [polypeptide binding]; other site 1111068007268 dimer interface [polypeptide binding]; other site 1111068007269 TPP binding site [chemical binding]; other site 1111068007270 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1111068007271 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1111068007272 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1111068007273 substrate binding pocket [chemical binding]; other site 1111068007274 chain length determination region; other site 1111068007275 substrate-Mg2+ binding site; other site 1111068007276 catalytic residues [active] 1111068007277 aspartate-rich region 1; other site 1111068007278 active site lid residues [active] 1111068007279 aspartate-rich region 2; other site 1111068007280 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14063 1111068007281 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1111068007282 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 1111068007283 generic binding surface II; other site 1111068007284 generic binding surface I; other site 1111068007285 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 1111068007286 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1111068007287 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1111068007288 homodimer interface [polypeptide binding]; other site 1111068007289 NADP binding site [chemical binding]; other site 1111068007290 substrate binding site [chemical binding]; other site 1111068007291 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1111068007292 putative RNA binding site [nucleotide binding]; other site 1111068007293 Asp23 family; Region: Asp23; pfam03780 1111068007294 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1111068007295 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1111068007296 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1111068007297 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1111068007298 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1111068007299 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 1111068007300 carboxyltransferase (CT) interaction site; other site 1111068007301 biotinylation site [posttranslational modification]; other site 1111068007302 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 1111068007303 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 1111068007304 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 1111068007305 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 1111068007306 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 1111068007307 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 1111068007308 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 1111068007309 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 1111068007310 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 1111068007311 Walker A motif; other site 1111068007312 ATP binding site [chemical binding]; other site 1111068007313 Walker B motif; other site 1111068007314 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 1111068007315 elongation factor P; Validated; Region: PRK00529 1111068007316 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1111068007317 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 1111068007318 RNA binding site [nucleotide binding]; other site 1111068007319 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 1111068007320 RNA binding site [nucleotide binding]; other site 1111068007321 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1111068007322 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1111068007323 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 1111068007324 active site 1111068007325 Conserved membrane protein YqhR; Region: YqhR; pfam11085 1111068007326 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 1111068007327 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1111068007328 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1111068007329 active site 1111068007330 nucleophile elbow; other site 1111068007331 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068007332 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068007333 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068007334 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068007335 manganese transport transcriptional regulator; Provisional; Region: PRK03902 1111068007336 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1111068007337 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1111068007338 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; cl01837 1111068007339 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1111068007340 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068007341 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 1111068007342 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068007343 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068007344 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 1111068007345 active site 1111068007346 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08115 1111068007347 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1111068007348 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1111068007349 active site 1111068007350 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1111068007351 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 1111068007352 active site residue [active] 1111068007353 MarR family; Region: MarR_2; pfam12802 1111068007354 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1111068007355 ROK family; Region: ROK; pfam00480 1111068007356 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 1111068007357 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 1111068007358 tetramer interface [polypeptide binding]; other site 1111068007359 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068007360 catalytic residue [active] 1111068007361 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 1111068007362 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 1111068007363 tetramer interface [polypeptide binding]; other site 1111068007364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068007365 catalytic residue [active] 1111068007366 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1111068007367 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1111068007368 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1111068007369 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1111068007370 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 1111068007371 ATP binding site [chemical binding]; other site 1111068007372 putative Mg++ binding site [ion binding]; other site 1111068007373 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 1111068007374 nucleotide binding region [chemical binding]; other site 1111068007375 ATP-binding site [chemical binding]; other site 1111068007376 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 1111068007377 YqzE-like protein; Region: YqzE; pfam14038 1111068007378 ComG operon protein 7; Region: ComGG; pfam14173 1111068007379 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1111068007380 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 1111068007381 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1111068007382 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1111068007383 Type II/IV secretion system protein; Region: T2SE; pfam00437 1111068007384 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 1111068007385 Walker A motif; other site 1111068007386 ATP binding site [chemical binding]; other site 1111068007387 Walker B motif; other site 1111068007388 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 1111068007389 putative DNA binding site [nucleotide binding]; other site 1111068007390 dimerization interface [polypeptide binding]; other site 1111068007391 Predicted transcriptional regulator [Transcription]; Region: COG2345 1111068007392 putative Zn2+ binding site [ion binding]; other site 1111068007393 Protein of unknown function (DUF2626); Region: DUF2626; pfam11117 1111068007394 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 1111068007395 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1111068007396 Protein of unknown function (DUF2759); Region: DUF2759; pfam10958 1111068007397 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 1111068007398 putative active site [active] 1111068007399 Zn binding site [ion binding]; other site 1111068007400 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1111068007401 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1111068007402 nucleotide binding site [chemical binding]; other site 1111068007403 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 1111068007404 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1111068007405 Rhomboid family; Region: Rhomboid; pfam01694 1111068007406 Integral membrane protein DUF92; Region: DUF92; pfam01940 1111068007407 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1111068007408 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1111068007409 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1111068007410 YceG-like family; Region: YceG; pfam02618 1111068007411 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1111068007412 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1111068007413 Walker A/P-loop; other site 1111068007414 ATP binding site [chemical binding]; other site 1111068007415 Q-loop/lid; other site 1111068007416 ABC transporter signature motif; other site 1111068007417 Walker B; other site 1111068007418 D-loop; other site 1111068007419 H-loop/switch region; other site 1111068007420 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1111068007421 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1111068007422 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1111068007423 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1111068007424 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 1111068007425 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1111068007426 putative substrate translocation pore; other site 1111068007427 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1111068007428 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1111068007429 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1111068007430 HAMP domain; Region: HAMP; pfam00672 1111068007431 dimerization interface [polypeptide binding]; other site 1111068007432 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1111068007433 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1111068007434 dimer interface [polypeptide binding]; other site 1111068007435 putative CheW interface [polypeptide binding]; other site 1111068007436 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 1111068007437 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1111068007438 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 1111068007439 dimer interface [polypeptide binding]; other site 1111068007440 conserved gate region; other site 1111068007441 putative PBP binding loops; other site 1111068007442 ABC-ATPase subunit interface; other site 1111068007443 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1111068007444 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 1111068007445 dimer interface [polypeptide binding]; other site 1111068007446 conserved gate region; other site 1111068007447 putative PBP binding loops; other site 1111068007448 ABC-ATPase subunit interface; other site 1111068007449 phosphate binding protein; Region: ptsS_2; TIGR02136 1111068007450 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1111068007451 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 1111068007452 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1111068007453 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1111068007454 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1111068007455 Uncharacterized conserved protein [Function unknown]; Region: COG5663 1111068007456 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1111068007457 metal binding site 2 [ion binding]; metal-binding site 1111068007458 putative DNA binding helix; other site 1111068007459 metal binding site 1 [ion binding]; metal-binding site 1111068007460 dimer interface [polypeptide binding]; other site 1111068007461 structural Zn2+ binding site [ion binding]; other site 1111068007462 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1111068007463 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 1111068007464 ABC-ATPase subunit interface; other site 1111068007465 dimer interface [polypeptide binding]; other site 1111068007466 putative PBP binding regions; other site 1111068007467 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1111068007468 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1111068007469 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1111068007470 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1111068007471 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1111068007472 Protein of unknown function (DUF2624); Region: DUF2624; pfam11116 1111068007473 endonuclease IV; Provisional; Region: PRK01060 1111068007474 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 1111068007475 AP (apurinic/apyrimidinic) site pocket; other site 1111068007476 DNA interaction; other site 1111068007477 Metal-binding active site; metal-binding site 1111068007478 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 1111068007479 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1111068007480 ATP binding site [chemical binding]; other site 1111068007481 Mg++ binding site [ion binding]; other site 1111068007482 motif III; other site 1111068007483 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 1111068007484 nucleotide binding region [chemical binding]; other site 1111068007485 ATP-binding site [chemical binding]; other site 1111068007486 YqfQ-like protein; Region: YqfQ; pfam14181 1111068007487 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1111068007488 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1111068007489 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1111068007490 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1111068007491 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1111068007492 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1111068007493 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1111068007494 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1111068007495 Family of unknown function (DUF633); Region: DUF633; pfam04816 1111068007496 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1111068007497 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1111068007498 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1111068007499 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1111068007500 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1111068007501 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1111068007502 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1111068007503 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 1111068007504 DNA binding residues [nucleotide binding] 1111068007505 DNA primase; Validated; Region: dnaG; PRK05667 1111068007506 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1111068007507 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1111068007508 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 1111068007509 active site 1111068007510 metal binding site [ion binding]; metal-binding site 1111068007511 interdomain interaction site; other site 1111068007512 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1111068007513 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1111068007514 HTH domain; Region: HTH_11; pfam08279 1111068007515 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 1111068007516 FOG: CBS domain [General function prediction only]; Region: COG0517 1111068007517 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1111068007518 Recombination protein O N terminal; Region: RecO_N; pfam11967 1111068007519 Recombination protein O C terminal; Region: RecO_C; pfam02565 1111068007520 YqzL-like protein; Region: YqzL; pfam14006 1111068007521 GTPase Era; Reviewed; Region: era; PRK00089 1111068007522 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1111068007523 G1 box; other site 1111068007524 GTP/Mg2+ binding site [chemical binding]; other site 1111068007525 Switch I region; other site 1111068007526 G2 box; other site 1111068007527 Switch II region; other site 1111068007528 G3 box; other site 1111068007529 G4 box; other site 1111068007530 G5 box; other site 1111068007531 KH domain; Region: KH_2; pfam07650 1111068007532 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 1111068007533 active site 1111068007534 catalytic motif [active] 1111068007535 Zn binding site [ion binding]; other site 1111068007536 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 1111068007537 metal-binding heat shock protein; Provisional; Region: PRK00016 1111068007538 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 1111068007539 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 1111068007540 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1111068007541 Zn2+ binding site [ion binding]; other site 1111068007542 Mg2+ binding site [ion binding]; other site 1111068007543 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1111068007544 PhoH-like protein; Region: PhoH; pfam02562 1111068007545 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 1111068007546 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 1111068007547 sporulation protein YqfC; Region: spore_yqfC; TIGR02856 1111068007548 Yqey-like protein; Region: YqeY; pfam09424 1111068007549 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1111068007550 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 1111068007551 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1111068007552 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1111068007553 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1111068007554 intersubunit interface [polypeptide binding]; other site 1111068007555 active site 1111068007556 catalytic residue [active] 1111068007557 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068007558 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1111068007559 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1111068007560 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 1111068007561 FeS/SAM binding site; other site 1111068007562 TRAM domain; Region: TRAM; cl01282 1111068007563 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1111068007564 RNA methyltransferase, RsmE family; Region: TIGR00046 1111068007565 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1111068007566 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 1111068007567 S-adenosylmethionine binding site [chemical binding]; other site 1111068007568 chaperone protein DnaJ; Provisional; Region: PRK14280 1111068007569 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 1111068007570 HSP70 interaction site [polypeptide binding]; other site 1111068007571 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1111068007572 substrate binding site [polypeptide binding]; other site 1111068007573 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1111068007574 Zn binding sites [ion binding]; other site 1111068007575 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1111068007576 dimer interface [polypeptide binding]; other site 1111068007577 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1111068007578 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1111068007579 nucleotide binding site [chemical binding]; other site 1111068007580 NEF interaction site [polypeptide binding]; other site 1111068007581 SBD interface [polypeptide binding]; other site 1111068007582 heat shock protein GrpE; Provisional; Region: PRK14140 1111068007583 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 1111068007584 dimer interface [polypeptide binding]; other site 1111068007585 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1111068007586 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1111068007587 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1111068007588 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1111068007589 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 1111068007590 FeS/SAM binding site; other site 1111068007591 HemN C-terminal domain; Region: HemN_C; pfam06969 1111068007592 GTP-binding protein LepA; Provisional; Region: PRK05433 1111068007593 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1111068007594 G1 box; other site 1111068007595 putative GEF interaction site [polypeptide binding]; other site 1111068007596 GTP/Mg2+ binding site [chemical binding]; other site 1111068007597 Switch I region; other site 1111068007598 G2 box; other site 1111068007599 G3 box; other site 1111068007600 Switch II region; other site 1111068007601 G4 box; other site 1111068007602 G5 box; other site 1111068007603 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 1111068007604 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 1111068007605 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1111068007606 Protein of unknown function (DUF3679); Region: DUF3679; pfam12438 1111068007607 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 1111068007608 stage II sporulation protein P; Region: spore_II_P; TIGR02867 1111068007609 germination protease; Provisional; Region: PRK02858 1111068007610 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1111068007611 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1111068007612 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1111068007613 YqzM-like protein; Region: YqzM; pfam14141 1111068007614 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1111068007615 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1111068007616 Competence protein; Region: Competence; pfam03772 1111068007617 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1111068007618 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 1111068007619 catalytic motif [active] 1111068007620 Zn binding site [ion binding]; other site 1111068007621 SLBB domain; Region: SLBB; pfam10531 1111068007622 comEA protein; Region: comE; TIGR01259 1111068007623 late competence protein ComER; Validated; Region: PRK07680 1111068007624 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1111068007625 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1111068007626 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 1111068007627 S-adenosylmethionine binding site [chemical binding]; other site 1111068007628 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1111068007629 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 1111068007630 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1111068007631 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1111068007632 active site 1111068007633 (T/H)XGH motif; other site 1111068007634 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1111068007635 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1111068007636 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1111068007637 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1111068007638 shikimate binding site; other site 1111068007639 NAD(P) binding site [chemical binding]; other site 1111068007640 GTPase YqeH; Provisional; Region: PRK13796 1111068007641 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1111068007642 GTP/Mg2+ binding site [chemical binding]; other site 1111068007643 G4 box; other site 1111068007644 G5 box; other site 1111068007645 G1 box; other site 1111068007646 Switch I region; other site 1111068007647 G2 box; other site 1111068007648 G3 box; other site 1111068007649 Switch II region; other site 1111068007650 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1111068007651 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 1111068007652 active site 1111068007653 motif I; other site 1111068007654 motif II; other site 1111068007655 Sporulation inhibitor A; Region: Sda; pfam08970 1111068007656 phosphatidylserine decarboxylase; Provisional; Region: PRK03140 1111068007657 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1111068007658 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 1111068007659 flagellar motor protein MotA; Validated; Region: PRK08124 1111068007660 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1111068007661 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 1111068007662 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1111068007663 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1111068007664 ligand binding site [chemical binding]; other site 1111068007665 sporulation integral membrane protein YtvI; Region: spore_ytvI; TIGR02872 1111068007666 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1111068007667 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1111068007668 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1111068007669 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 1111068007670 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1111068007671 putative active site [active] 1111068007672 putative NTP binding site [chemical binding]; other site 1111068007673 putative nucleic acid binding site [nucleotide binding]; other site 1111068007674 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1111068007675 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1111068007676 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1111068007677 sporulation sigma factor SigK; Reviewed; Region: PRK05803 1111068007678 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1111068007679 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 1111068007680 DNA binding residues [nucleotide binding] 1111068007681 YrhC-like protein; Region: YrhC; pfam14143 1111068007682 cystathionine beta-lyase; Provisional; Region: PRK07671 1111068007683 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 1111068007684 homodimer interface [polypeptide binding]; other site 1111068007685 substrate-cofactor binding pocket; other site 1111068007686 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068007687 catalytic residue [active] 1111068007688 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1111068007689 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 1111068007690 dimer interface [polypeptide binding]; other site 1111068007691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068007692 catalytic residue [active] 1111068007693 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1111068007694 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1111068007695 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1111068007696 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 1111068007697 S-adenosylmethionine binding site [chemical binding]; other site 1111068007698 Protein of unknown function (DUF2536); Region: DUF2536; pfam10750 1111068007699 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 1111068007700 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1111068007701 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1111068007702 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1111068007703 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1111068007704 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1111068007705 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1111068007706 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1111068007707 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 1111068007708 Sugar specificity; other site 1111068007709 Pyrimidine base specificity; other site 1111068007710 ATP-binding site [chemical binding]; other site 1111068007711 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1111068007712 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 1111068007713 Peptidase family U32; Region: Peptidase_U32; pfam01136 1111068007714 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1111068007715 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 1111068007716 Peptidase family U32; Region: Peptidase_U32; pfam01136 1111068007717 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1111068007718 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 1111068007719 S-adenosylmethionine binding site [chemical binding]; other site 1111068007720 YceG-like family; Region: YceG; pfam02618 1111068007721 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1111068007722 dimerization interface [polypeptide binding]; other site 1111068007723 hypothetical protein; Provisional; Region: PRK13678 1111068007724 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1111068007725 hypothetical protein; Provisional; Region: PRK05473 1111068007726 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1111068007727 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 1111068007728 motif 1; other site 1111068007729 active site 1111068007730 motif 2; other site 1111068007731 motif 3; other site 1111068007732 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1111068007733 DHHA1 domain; Region: DHHA1; pfam02272 1111068007734 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1111068007735 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1111068007736 Protein of unknown function (DUF3918); Region: DUF3918; pfam13056 1111068007737 PRC-barrel domain; Region: PRC; pfam05239 1111068007738 PRC-barrel domain; Region: PRC; pfam05239 1111068007739 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1111068007740 AAA domain; Region: AAA_30; pfam13604 1111068007741 Family description; Region: UvrD_C_2; pfam13538 1111068007742 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 1111068007743 binding surface 1111068007744 TPR repeat; Region: TPR_11; pfam13414 1111068007745 TPR motif; other site 1111068007746 TPR repeat; Region: TPR_11; pfam13414 1111068007747 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 1111068007748 binding surface 1111068007749 TPR motif; other site 1111068007750 TPR repeat; Region: TPR_11; pfam13414 1111068007751 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1111068007752 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 1111068007753 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1111068007754 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1111068007755 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1111068007756 catalytic residue [active] 1111068007757 Predicted transcriptional regulator [Transcription]; Region: COG1959 1111068007758 Transcriptional regulator; Region: Rrf2; pfam02082 1111068007759 Predicted membrane protein [Function unknown]; Region: COG2364 1111068007760 recombination factor protein RarA; Reviewed; Region: PRK13342 1111068007761 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 1111068007762 Walker A motif; other site 1111068007763 ATP binding site [chemical binding]; other site 1111068007764 Walker B motif; other site 1111068007765 arginine finger; other site 1111068007766 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1111068007767 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1111068007768 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1111068007769 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1111068007770 Protein export membrane protein; Region: SecD_SecF; cl14618 1111068007771 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 1111068007772 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 1111068007773 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1111068007774 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 1111068007775 putative ATP binding site [chemical binding]; other site 1111068007776 putative substrate interface [chemical binding]; other site 1111068007777 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1111068007778 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 1111068007779 dimer interface [polypeptide binding]; other site 1111068007780 anticodon binding site; other site 1111068007781 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 1111068007782 homodimer interface [polypeptide binding]; other site 1111068007783 motif 1; other site 1111068007784 active site 1111068007785 motif 2; other site 1111068007786 GAD domain; Region: GAD; pfam02938 1111068007787 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 1111068007788 motif 3; other site 1111068007789 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1111068007790 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 1111068007791 dimer interface [polypeptide binding]; other site 1111068007792 motif 1; other site 1111068007793 active site 1111068007794 motif 2; other site 1111068007795 motif 3; other site 1111068007796 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 1111068007797 anticodon binding site; other site 1111068007798 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1111068007799 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 1111068007800 catalytic residue [active] 1111068007801 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 1111068007802 catalytic residues [active] 1111068007803 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1111068007804 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1111068007805 peroxiredoxin; Region: AhpC; TIGR03137 1111068007806 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 1111068007807 dimer interface [polypeptide binding]; other site 1111068007808 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1111068007809 catalytic triad [active] 1111068007810 peroxidatic and resolving cysteines [active] 1111068007811 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 1111068007812 putative active site [active] 1111068007813 dimerization interface [polypeptide binding]; other site 1111068007814 putative tRNAtyr binding site [nucleotide binding]; other site 1111068007815 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1111068007816 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1111068007817 Zn2+ binding site [ion binding]; other site 1111068007818 Mg2+ binding site [ion binding]; other site 1111068007819 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1111068007820 synthetase active site [active] 1111068007821 NTP binding site [chemical binding]; other site 1111068007822 metal binding site [ion binding]; metal-binding site 1111068007823 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 1111068007824 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1111068007825 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1111068007826 active site 1111068007827 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1111068007828 DHH family; Region: DHH; pfam01368 1111068007829 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 1111068007830 DHHA1 domain; Region: DHHA1; pfam02272 1111068007831 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; pfam10141 1111068007832 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1111068007833 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1111068007834 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1111068007835 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1111068007836 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1111068007837 Protein export membrane protein; Region: SecD_SecF; pfam02355 1111068007838 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 1111068007839 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1111068007840 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1111068007841 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 1111068007842 Preprotein translocase subunit; Region: YajC; pfam02699 1111068007843 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1111068007844 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1111068007845 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1111068007846 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1111068007847 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 1111068007848 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1111068007849 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 1111068007850 Walker A motif; other site 1111068007851 ATP binding site [chemical binding]; other site 1111068007852 Walker B motif; other site 1111068007853 arginine finger; other site 1111068007854 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1111068007855 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1111068007856 RuvA N terminal domain; Region: RuvA_N; pfam01330 1111068007857 Bypass of Forespore C, N terminal; Region: BOFC_N; pfam08977 1111068007858 BofC C-terminal domain; Region: BofC_C; pfam08955 1111068007859 hypothetical protein; Validated; Region: PRK00110 1111068007860 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 1111068007861 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 1111068007862 NAD synthetase; Provisional; Region: PRK13980 1111068007863 homodimer interface [polypeptide binding]; other site 1111068007864 NAD binding pocket [chemical binding]; other site 1111068007865 ATP binding pocket [chemical binding]; other site 1111068007866 Mg binding site [ion binding]; other site 1111068007867 active-site loop [active] 1111068007868 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1111068007869 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1111068007870 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068007871 quinolinate synthetase; Provisional; Region: PRK09375 1111068007872 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK08072 1111068007873 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 1111068007874 dimerization interface [polypeptide binding]; other site 1111068007875 active site 1111068007876 L-aspartate oxidase; Provisional; Region: PRK08071 1111068007877 L-aspartate oxidase; Provisional; Region: PRK06175 1111068007878 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1111068007879 cysteine desulfurase; Provisional; Region: PRK02948 1111068007880 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1111068007881 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1111068007882 catalytic residue [active] 1111068007883 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1111068007884 HTH domain; Region: HTH_11; pfam08279 1111068007885 3H domain; Region: 3H; pfam02829 1111068007886 prephenate dehydratase; Provisional; Region: PRK11898 1111068007887 Prephenate dehydratase; Region: PDT; pfam00800 1111068007888 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 1111068007889 putative L-Phe binding site [chemical binding]; other site 1111068007890 hypothetical protein; Provisional; Region: PRK04435 1111068007891 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 1111068007892 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1111068007893 GTP1/OBG; Region: GTP1_OBG; pfam01018 1111068007894 Obg GTPase; Region: Obg; cd01898 1111068007895 G1 box; other site 1111068007896 GTP/Mg2+ binding site [chemical binding]; other site 1111068007897 Switch I region; other site 1111068007898 G2 box; other site 1111068007899 G3 box; other site 1111068007900 Switch II region; other site 1111068007901 G4 box; other site 1111068007902 G5 box; other site 1111068007903 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1111068007904 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1111068007905 hypothetical protein; Provisional; Region: PRK14553 1111068007906 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1111068007907 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1111068007908 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 1111068007909 Peptidase family M50; Region: Peptidase_M50; pfam02163 1111068007910 active site 1111068007911 putative substrate binding region [chemical binding]; other site 1111068007912 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1111068007913 Peptidase family M23; Region: Peptidase_M23; pfam01551 1111068007914 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1111068007915 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 1111068007916 Switch I; other site 1111068007917 Switch II; other site 1111068007918 septum formation inhibitor; Reviewed; Region: minC; PRK00513 1111068007919 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1111068007920 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 1111068007921 rod shape-determining protein MreC; Provisional; Region: PRK13922 1111068007922 rod shape-determining protein MreC; Region: MreC; pfam04085 1111068007923 rod shape-determining protein MreB; Provisional; Region: PRK13927 1111068007924 MreB and similar proteins; Region: MreB_like; cd10225 1111068007925 nucleotide binding site [chemical binding]; other site 1111068007926 Mg binding site [ion binding]; other site 1111068007927 putative protofilament interaction site [polypeptide binding]; other site 1111068007928 RodZ interaction site [polypeptide binding]; other site 1111068007929 hypothetical protein; Reviewed; Region: PRK00024 1111068007930 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1111068007931 helix-hairpin-helix signature motif; other site 1111068007932 active site 1111068007933 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1111068007934 MPN+ (JAMM) motif; other site 1111068007935 Zinc-binding site [ion binding]; other site 1111068007936 Maf-like protein; Region: Maf; pfam02545 1111068007937 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 1111068007938 active site 1111068007939 dimer interface [polypeptide binding]; other site 1111068007940 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1111068007941 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1111068007942 Competence protein A; Region: Competence_A; pfam11104 1111068007943 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 1111068007944 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1111068007945 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1111068007946 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1111068007947 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1111068007948 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1111068007949 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1111068007950 Mitochondrial ribosomal death-associated protein 3; Region: DAP3; pfam10236 1111068007951 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 1111068007952 Walker A motif; other site 1111068007953 ATP binding site [chemical binding]; other site 1111068007954 Walker B motif; other site 1111068007955 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1111068007956 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1111068007957 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 1111068007958 Walker A motif; other site 1111068007959 ATP binding site [chemical binding]; other site 1111068007960 Walker B motif; other site 1111068007961 VanW like protein; Region: VanW; pfam04294 1111068007962 G5 domain; Region: G5; pfam07501 1111068007963 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 1111068007964 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 1111068007965 metal ion-dependent adhesion site (MIDAS); other site 1111068007966 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1111068007967 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1111068007968 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1111068007969 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1111068007970 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1111068007971 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1111068007972 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1111068007973 active site 1111068007974 HIGH motif; other site 1111068007975 nucleotide binding site [chemical binding]; other site 1111068007976 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1111068007977 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1111068007978 active site 1111068007979 KMSKS motif; other site 1111068007980 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1111068007981 tRNA binding surface [nucleotide binding]; other site 1111068007982 anticodon binding site; other site 1111068007983 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1111068007984 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068007985 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 1111068007986 stage VI sporulation protein D; Region: spore_VI_D; TIGR02907 1111068007987 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068007988 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1111068007989 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 1111068007990 inhibitor-cofactor binding pocket; inhibition site 1111068007991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068007992 catalytic residue [active] 1111068007993 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 1111068007994 dimer interface [polypeptide binding]; other site 1111068007995 active site 1111068007996 Schiff base residues; other site 1111068007997 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1111068007998 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 1111068007999 active site 1111068008000 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1111068008001 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 1111068008002 domain interfaces; other site 1111068008003 active site 1111068008004 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1111068008005 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1111068008006 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1111068008007 tRNA; other site 1111068008008 putative tRNA binding site [nucleotide binding]; other site 1111068008009 putative NADP binding site [chemical binding]; other site 1111068008010 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1111068008011 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1111068008012 G1 box; other site 1111068008013 GTP/Mg2+ binding site [chemical binding]; other site 1111068008014 Switch I region; other site 1111068008015 G2 box; other site 1111068008016 G3 box; other site 1111068008017 Switch II region; other site 1111068008018 G4 box; other site 1111068008019 G5 box; other site 1111068008020 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1111068008021 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1111068008022 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 1111068008023 Walker A motif; other site 1111068008024 ATP binding site [chemical binding]; other site 1111068008025 Walker B motif; other site 1111068008026 arginine finger; other site 1111068008027 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1111068008028 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 1111068008029 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 1111068008030 Walker A motif; other site 1111068008031 ATP binding site [chemical binding]; other site 1111068008032 Walker B motif; other site 1111068008033 arginine finger; other site 1111068008034 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1111068008035 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1111068008036 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1111068008037 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 1111068008038 Walker A motif; other site 1111068008039 ATP binding site [chemical binding]; other site 1111068008040 Walker B motif; other site 1111068008041 arginine finger; other site 1111068008042 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1111068008043 trigger factor; Provisional; Region: tig; PRK01490 1111068008044 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1111068008045 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1111068008046 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 1111068008047 binding surface 1111068008048 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1111068008049 TPR motif; other site 1111068008050 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1111068008051 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 1111068008052 substrate binding site [chemical binding]; other site 1111068008053 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1111068008054 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1111068008055 substrate binding site [chemical binding]; other site 1111068008056 ligand binding site [chemical binding]; other site 1111068008057 tartrate dehydrogenase; Region: TTC; TIGR02089 1111068008058 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1111068008059 2-isopropylmalate synthase; Validated; Region: PRK00915 1111068008060 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1111068008061 active site 1111068008062 catalytic residues [active] 1111068008063 metal binding site [ion binding]; metal-binding site 1111068008064 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1111068008065 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1111068008066 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1111068008067 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1111068008068 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1111068008069 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1111068008070 putative valine binding site [chemical binding]; other site 1111068008071 dimer interface [polypeptide binding]; other site 1111068008072 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1111068008073 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 1111068008074 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1111068008075 PYR/PP interface [polypeptide binding]; other site 1111068008076 dimer interface [polypeptide binding]; other site 1111068008077 TPP binding site [chemical binding]; other site 1111068008078 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1111068008079 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 1111068008080 TPP-binding site [chemical binding]; other site 1111068008081 dimer interface [polypeptide binding]; other site 1111068008082 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1111068008083 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 1111068008084 homodimer interface [polypeptide binding]; other site 1111068008085 substrate-cofactor binding pocket; other site 1111068008086 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068008087 catalytic residue [active] 1111068008088 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1111068008089 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1111068008090 active site 1111068008091 metal binding site [ion binding]; metal-binding site 1111068008092 homotetramer interface [polypeptide binding]; other site 1111068008093 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 1111068008094 active site 1111068008095 dimerization interface [polypeptide binding]; other site 1111068008096 ribonuclease PH; Reviewed; Region: rph; PRK00173 1111068008097 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1111068008098 hexamer interface [polypeptide binding]; other site 1111068008099 active site 1111068008100 Spore germination protein [General function prediction only]; Region: COG5401 1111068008101 Sporulation and spore germination; Region: Germane; pfam10646 1111068008102 Sporulation and spore germination; Region: Germane; pfam10646 1111068008103 glutamate racemase; Provisional; Region: PRK00865 1111068008104 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1111068008105 MarR family; Region: MarR; pfam01047 1111068008106 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1111068008107 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 1111068008108 DNA binding residues [nucleotide binding] 1111068008109 dimerization interface [polypeptide binding]; other site 1111068008110 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 1111068008111 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1111068008112 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 1111068008113 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 1111068008114 L-aspartate oxidase; Provisional; Region: PRK06175 1111068008115 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1111068008116 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 1111068008117 putative Iron-sulfur protein interface [polypeptide binding]; other site 1111068008118 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 1111068008119 proximal heme binding site [chemical binding]; other site 1111068008120 distal heme binding site [chemical binding]; other site 1111068008121 putative dimer interface [polypeptide binding]; other site 1111068008122 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 1111068008123 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1111068008124 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1111068008125 GIY-YIG motif/motif A; other site 1111068008126 active site 1111068008127 catalytic site [active] 1111068008128 putative DNA binding site [nucleotide binding]; other site 1111068008129 metal binding site [ion binding]; metal-binding site 1111068008130 UvrB/uvrC motif; Region: UVR; pfam02151 1111068008131 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1111068008132 Iron permease FTR1 family; Region: FTR1; cl00475 1111068008133 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1111068008134 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1111068008135 Ligand binding site; other site 1111068008136 Putative Catalytic site; other site 1111068008137 DXD motif; other site 1111068008138 Sulfatase; Region: Sulfatase; cl17466 1111068008139 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1111068008140 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1111068008141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1111068008142 NAD(P) binding site [chemical binding]; other site 1111068008143 active site 1111068008144 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1111068008145 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1111068008146 active site 1111068008147 dimer interface [polypeptide binding]; other site 1111068008148 non-prolyl cis peptide bond; other site 1111068008149 insertion regions; other site 1111068008150 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 1111068008151 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1111068008152 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1111068008153 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 1111068008154 substrate binding pocket [chemical binding]; other site 1111068008155 membrane-bound complex binding site; other site 1111068008156 hinge residues; other site 1111068008157 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1111068008158 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1111068008159 Walker A/P-loop; other site 1111068008160 ATP binding site [chemical binding]; other site 1111068008161 Q-loop/lid; other site 1111068008162 ABC transporter signature motif; other site 1111068008163 Walker B; other site 1111068008164 D-loop; other site 1111068008165 H-loop/switch region; other site 1111068008166 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1111068008167 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 1111068008168 dimer interface [polypeptide binding]; other site 1111068008169 conserved gate region; other site 1111068008170 putative PBP binding loops; other site 1111068008171 ABC-ATPase subunit interface; other site 1111068008172 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1111068008173 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 1111068008174 substrate binding pocket [chemical binding]; other site 1111068008175 membrane-bound complex binding site; other site 1111068008176 hinge residues; other site 1111068008177 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068008178 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068008179 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068008180 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 1111068008181 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1111068008182 catalytic residues [active] 1111068008183 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1111068008184 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 1111068008185 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1111068008186 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 1111068008187 Ligand binding site [chemical binding]; other site 1111068008188 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1111068008189 enoyl-CoA hydratase; Provisional; Region: PRK07658 1111068008190 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 1111068008191 substrate binding site [chemical binding]; other site 1111068008192 oxyanion hole (OAH) forming residues; other site 1111068008193 trimer interface [polypeptide binding]; other site 1111068008194 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1111068008195 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1111068008196 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1111068008197 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 1111068008198 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 1111068008199 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1111068008200 acyl-activating enzyme (AAE) consensus motif; other site 1111068008201 putative AMP binding site [chemical binding]; other site 1111068008202 putative active site [active] 1111068008203 putative CoA binding site [chemical binding]; other site 1111068008204 Predicted membrane protein [Function unknown]; Region: COG3766 1111068008205 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1111068008206 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1111068008207 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1111068008208 MutS domain III; Region: MutS_III; pfam05192 1111068008209 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1111068008210 Walker A/P-loop; other site 1111068008211 ATP binding site [chemical binding]; other site 1111068008212 Q-loop/lid; other site 1111068008213 ABC transporter signature motif; other site 1111068008214 Walker B; other site 1111068008215 D-loop; other site 1111068008216 H-loop/switch region; other site 1111068008217 Smr domain; Region: Smr; pfam01713 1111068008218 hypothetical protein; Provisional; Region: PRK08609 1111068008219 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 1111068008220 active site 1111068008221 primer binding site [nucleotide binding]; other site 1111068008222 NTP binding site [chemical binding]; other site 1111068008223 metal binding triad [ion binding]; metal-binding site 1111068008224 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 1111068008225 active site 1111068008226 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1111068008227 Colicin V production protein; Region: Colicin_V; pfam02674 1111068008228 cell division protein ZapA; Provisional; Region: PRK14126 1111068008229 ribonuclease HIII; Provisional; Region: PRK00996 1111068008230 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1111068008231 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 1111068008232 RNA/DNA hybrid binding site [nucleotide binding]; other site 1111068008233 active site 1111068008234 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1111068008235 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1111068008236 potential catalytic triad [active] 1111068008237 conserved cys residue [active] 1111068008238 MMPL family; Region: MMPL; pfam03176 1111068008239 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 1111068008240 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1111068008241 MarR family; Region: MarR; pfam01047 1111068008242 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 1111068008243 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; cl15837 1111068008244 active site 1111068008245 dimer interface [polypeptide binding]; other site 1111068008246 camphor resistance protein CrcB; Provisional; Region: PRK14205 1111068008247 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1111068008248 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068008249 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068008250 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068008251 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068008252 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1111068008253 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1111068008254 Helix-turn-helix domain; Region: HTH_17; pfam12728 1111068008255 PBP superfamily domain; Region: PBP_like; pfam12727 1111068008256 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1111068008257 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 1111068008258 putative tRNA-binding site [nucleotide binding]; other site 1111068008259 B3/4 domain; Region: B3_4; pfam03483 1111068008260 tRNA synthetase B5 domain; Region: B5; smart00874 1111068008261 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 1111068008262 dimer interface [polypeptide binding]; other site 1111068008263 motif 1; other site 1111068008264 motif 3; other site 1111068008265 motif 2; other site 1111068008266 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1111068008267 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1111068008268 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1111068008269 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 1111068008270 dimer interface [polypeptide binding]; other site 1111068008271 motif 1; other site 1111068008272 active site 1111068008273 motif 2; other site 1111068008274 motif 3; other site 1111068008275 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1111068008276 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1111068008277 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1111068008278 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1111068008279 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1111068008280 small acid-soluble spore protein SspI; Provisional; Region: PRK02955 1111068008281 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1111068008282 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1111068008283 oligomer interface [polypeptide binding]; other site 1111068008284 active site 1111068008285 metal binding site [ion binding]; metal-binding site 1111068008286 dUTPase; Region: dUTPase_2; pfam08761 1111068008287 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 1111068008288 active site 1111068008289 homodimer interface [polypeptide binding]; other site 1111068008290 metal binding site [ion binding]; metal-binding site 1111068008291 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1111068008292 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1111068008293 23S rRNA binding site [nucleotide binding]; other site 1111068008294 L21 binding site [polypeptide binding]; other site 1111068008295 L13 binding site [polypeptide binding]; other site 1111068008296 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1111068008297 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1111068008298 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1111068008299 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1111068008300 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1111068008301 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 1111068008302 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1111068008303 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 1111068008304 active site 1111068008305 dimer interface [polypeptide binding]; other site 1111068008306 motif 1; other site 1111068008307 motif 2; other site 1111068008308 motif 3; other site 1111068008309 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 1111068008310 anticodon binding site; other site 1111068008311 putative sporulation protein YtxC; Region: spo_ytxC; TIGR02834 1111068008312 primosomal protein DnaI; Reviewed; Region: PRK08939 1111068008313 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1111068008314 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 1111068008315 Walker A motif; other site 1111068008316 ATP binding site [chemical binding]; other site 1111068008317 Walker B motif; other site 1111068008318 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1111068008319 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1111068008320 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1111068008321 ATP cone domain; Region: ATP-cone; pfam03477 1111068008322 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1111068008323 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 1111068008324 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 1111068008325 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1111068008326 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1111068008327 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1111068008328 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 1111068008329 CoA-binding site [chemical binding]; other site 1111068008330 ATP-binding [chemical binding]; other site 1111068008331 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1111068008332 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1111068008333 DNA binding site [nucleotide binding] 1111068008334 catalytic residue [active] 1111068008335 H2TH interface [polypeptide binding]; other site 1111068008336 putative catalytic residues [active] 1111068008337 turnover-facilitating residue; other site 1111068008338 intercalation triad [nucleotide binding]; other site 1111068008339 8OG recognition residue [nucleotide binding]; other site 1111068008340 putative reading head residues; other site 1111068008341 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1111068008342 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1111068008343 DNA polymerase I; Provisional; Region: PRK05755 1111068008344 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1111068008345 active site 1111068008346 metal binding site 1 [ion binding]; metal-binding site 1111068008347 putative 5' ssDNA interaction site; other site 1111068008348 metal binding site 3; metal-binding site 1111068008349 metal binding site 2 [ion binding]; metal-binding site 1111068008350 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1111068008351 putative DNA binding site [nucleotide binding]; other site 1111068008352 putative metal binding site [ion binding]; other site 1111068008353 DEDDy 3'-5' exonuclease domain of family-A DNA polymerases; Region: DNA_polA_exo; cd06128 1111068008354 active site 1111068008355 catalytic site [active] 1111068008356 substrate binding site [chemical binding]; other site 1111068008357 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1111068008358 active site 1111068008359 DNA binding site [nucleotide binding] 1111068008360 catalytic site [active] 1111068008361 HAMP domain; Region: HAMP; pfam00672 1111068008362 dimerization interface [polypeptide binding]; other site 1111068008363 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1111068008364 PAS domain; Region: PAS; smart00091 1111068008365 putative active site [active] 1111068008366 heme pocket [chemical binding]; other site 1111068008367 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 1111068008368 dimer interface [polypeptide binding]; other site 1111068008369 phosphorylation site [posttranslational modification] 1111068008370 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 1111068008371 ATP binding site [chemical binding]; other site 1111068008372 Mg2+ binding site [ion binding]; other site 1111068008373 G-X-G motif; other site 1111068008374 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1111068008375 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 1111068008376 active site 1111068008377 phosphorylation site [posttranslational modification] 1111068008378 intermolecular recognition site; other site 1111068008379 dimerization interface [polypeptide binding]; other site 1111068008380 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 1111068008381 DNA binding site [nucleotide binding] 1111068008382 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1111068008383 active site 2 [active] 1111068008384 active site 1 [active] 1111068008385 malate dehydrogenase; Reviewed; Region: PRK06223 1111068008386 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1111068008387 NAD(P) binding site [chemical binding]; other site 1111068008388 dimer interface [polypeptide binding]; other site 1111068008389 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1111068008390 substrate binding site [chemical binding]; other site 1111068008391 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1111068008392 isocitrate dehydrogenase; Validated; Region: PRK07362 1111068008393 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 1111068008394 Citrate synthase; Region: Citrate_synt; pfam00285 1111068008395 dimer interface [polypeptide binding]; other site 1111068008396 active site 1111068008397 oxalacetate/citrate binding site [chemical binding]; other site 1111068008398 citrylCoA binding site [chemical binding]; other site 1111068008399 coenzyme A binding site [chemical binding]; other site 1111068008400 catalytic triad [active] 1111068008401 Protein of unknown function (DUF441); Region: DUF441; pfam04284 1111068008402 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1111068008403 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1111068008404 pyruvate kinase; Provisional; Region: PRK06354 1111068008405 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 1111068008406 domain interfaces; other site 1111068008407 active site 1111068008408 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 1111068008409 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 1111068008410 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1111068008411 active site 1111068008412 ADP/pyrophosphate binding site [chemical binding]; other site 1111068008413 dimerization interface [polypeptide binding]; other site 1111068008414 allosteric effector site; other site 1111068008415 fructose-1,6-bisphosphate binding site; other site 1111068008416 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1111068008417 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1111068008418 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1111068008419 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 1111068008420 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1111068008421 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1111068008422 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1111068008423 DNA-binding site [nucleotide binding]; DNA binding site 1111068008424 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06920 1111068008425 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1111068008426 active site 1111068008427 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 1111068008428 generic binding surface II; other site 1111068008429 generic binding surface I; other site 1111068008430 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 1111068008431 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1111068008432 DHH family; Region: DHH; pfam01368 1111068008433 DHHA1 domain; Region: DHHA1; pfam02272 1111068008434 YtpI-like protein; Region: YtpI; pfam14007 1111068008435 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1111068008436 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1111068008437 DNA-binding site [nucleotide binding]; DNA binding site 1111068008438 DRTGG domain; Region: DRTGG; pfam07085 1111068008439 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 1111068008440 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 1111068008441 active site 2 [active] 1111068008442 active site 1 [active] 1111068008443 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1111068008444 metal-dependent hydrolase; Provisional; Region: PRK00685 1111068008445 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1111068008446 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1111068008447 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 1111068008448 active site 1111068008449 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1111068008450 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1111068008451 hexamer interface [polypeptide binding]; other site 1111068008452 ligand binding site [chemical binding]; other site 1111068008453 putative active site [active] 1111068008454 NAD(P) binding site [chemical binding]; other site 1111068008455 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1111068008456 classical (c) SDRs; Region: SDR_c; cd05233 1111068008457 NAD(P) binding site [chemical binding]; other site 1111068008458 active site 1111068008459 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 1111068008460 Ligand Binding Site [chemical binding]; other site 1111068008461 argininosuccinate lyase; Provisional; Region: PRK00855 1111068008462 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1111068008463 active sites [active] 1111068008464 tetramer interface [polypeptide binding]; other site 1111068008465 argininosuccinate synthase; Provisional; Region: PRK13820 1111068008466 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 1111068008467 ANP binding site [chemical binding]; other site 1111068008468 Substrate Binding Site II [chemical binding]; other site 1111068008469 Substrate Binding Site I [chemical binding]; other site 1111068008470 acetyl-CoA synthetase; Provisional; Region: PRK04319 1111068008471 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 1111068008472 active site 1111068008473 acyl-activating enzyme (AAE) consensus motif; other site 1111068008474 putative CoA binding site [chemical binding]; other site 1111068008475 AMP binding site [chemical binding]; other site 1111068008476 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 1111068008477 dimerization interface [polypeptide binding]; other site 1111068008478 putative DNA binding site [nucleotide binding]; other site 1111068008479 putative Zn2+ binding site [ion binding]; other site 1111068008480 hypothetical protein; Provisional; Region: PRK07206 1111068008481 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1111068008482 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1111068008483 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1111068008484 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 1111068008485 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1111068008486 putative substrate translocation pore; other site 1111068008487 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1111068008488 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 1111068008489 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1111068008490 catalytic residue [active] 1111068008491 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 1111068008492 MPT binding site; other site 1111068008493 trimer interface [polypeptide binding]; other site 1111068008494 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1111068008495 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 1111068008496 DNA binding residues [nucleotide binding] 1111068008497 dimerization interface [polypeptide binding]; other site 1111068008498 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1111068008499 Ribonucleotide Reductase R2-like protein, Mn/Fe-binding domain; Region: RNRR2_Rv0233_like; cd07911 1111068008500 active site 1111068008501 diiron metal binding site [ion binding]; other site 1111068008502 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1111068008503 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1111068008504 NAD(P) binding site [chemical binding]; other site 1111068008505 catalytic residues [active] 1111068008506 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1111068008507 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 1111068008508 NAD binding site [chemical binding]; other site 1111068008509 catalytic Zn binding site [ion binding]; other site 1111068008510 substrate binding site [chemical binding]; other site 1111068008511 structural Zn binding site [ion binding]; other site 1111068008512 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1111068008513 ABC1 family; Region: ABC1; cl17513 1111068008514 Transmembrane proteins 14C; Region: Tmemb_14; cl02346 1111068008515 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 1111068008516 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1111068008517 dimer interface [polypeptide binding]; other site 1111068008518 active site 1111068008519 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1111068008520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1111068008521 NAD(P) binding site [chemical binding]; other site 1111068008522 active site 1111068008523 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 1111068008524 enoyl-CoA hydratase; Provisional; Region: PRK06688 1111068008525 substrate binding site [chemical binding]; other site 1111068008526 oxyanion hole (OAH) forming residues; other site 1111068008527 trimer interface [polypeptide binding]; other site 1111068008528 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1111068008529 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1111068008530 active site 1111068008531 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1111068008532 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1111068008533 active site 1111068008534 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1111068008535 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1111068008536 acyl-activating enzyme (AAE) consensus motif; other site 1111068008537 putative AMP binding site [chemical binding]; other site 1111068008538 putative active site [active] 1111068008539 putative CoA binding site [chemical binding]; other site 1111068008540 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1111068008541 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1111068008542 propionate/acetate kinase; Provisional; Region: PRK12379 1111068008543 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1111068008544 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 1111068008545 S-adenosylmethionine binding site [chemical binding]; other site 1111068008546 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 1111068008547 dimer interface [polypeptide binding]; other site 1111068008548 catalytic triad [active] 1111068008549 peroxidatic and resolving cysteines [active] 1111068008550 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 1111068008551 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 1111068008552 RDD family; Region: RDD; pfam06271 1111068008553 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1111068008554 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1111068008555 tandem repeat interface [polypeptide binding]; other site 1111068008556 oligomer interface [polypeptide binding]; other site 1111068008557 active site residues [active] 1111068008558 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03501 1111068008559 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1111068008560 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1111068008561 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 1111068008562 active site 1111068008563 acyl-activating enzyme (AAE) consensus motif; other site 1111068008564 putative CoA binding site [chemical binding]; other site 1111068008565 AMP binding site [chemical binding]; other site 1111068008566 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1111068008567 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1111068008568 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1111068008569 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 1111068008570 Ligand Binding Site [chemical binding]; other site 1111068008571 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1111068008572 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1111068008573 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1111068008574 catalytic residue [active] 1111068008575 septation ring formation regulator EzrA; Provisional; Region: PRK04778 1111068008576 histidinol-phosphatase; Reviewed; Region: PRK08123 1111068008577 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 1111068008578 active site 1111068008579 dimer interface [polypeptide binding]; other site 1111068008580 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068008581 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1111068008582 GAF domain; Region: GAF_2; pfam13185 1111068008583 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068008584 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068008585 GAF domain; Region: GAF_3; pfam13492 1111068008586 GAF domain; Region: GAF_2; pfam13185 1111068008587 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1111068008588 GAF domain; Region: GAF_3; pfam13492 1111068008589 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1111068008590 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1111068008591 metal binding site [ion binding]; metal-binding site 1111068008592 active site 1111068008593 I-site; other site 1111068008594 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1111068008595 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1111068008596 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 1111068008597 RNA binding surface [nucleotide binding]; other site 1111068008598 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1111068008599 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 1111068008600 active site 1111068008601 HIGH motif; other site 1111068008602 dimer interface [polypeptide binding]; other site 1111068008603 KMSKS motif; other site 1111068008604 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 1111068008605 RNA binding surface [nucleotide binding]; other site 1111068008606 Transglycosylase; Region: Transgly; pfam00912 1111068008607 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1111068008608 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1111068008609 acetyl-CoA synthetase; Provisional; Region: PRK04319 1111068008610 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 1111068008611 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 1111068008612 active site 1111068008613 acyl-activating enzyme (AAE) consensus motif; other site 1111068008614 putative CoA binding site [chemical binding]; other site 1111068008615 AMP binding site [chemical binding]; other site 1111068008616 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068008617 Coenzyme A binding pocket [chemical binding]; other site 1111068008618 FOG: CBS domain [General function prediction only]; Region: COG0517 1111068008619 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 1111068008620 C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB; Region: ACT_AcuB; cd04883 1111068008621 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1111068008622 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 1111068008623 active site 1111068008624 Zn binding site [ion binding]; other site 1111068008625 catabolite control protein A; Region: ccpA; TIGR01481 1111068008626 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1111068008627 DNA binding site [nucleotide binding] 1111068008628 domain linker motif; other site 1111068008629 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 1111068008630 dimerization interface [polypeptide binding]; other site 1111068008631 effector binding site; other site 1111068008632 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 1111068008633 Chorismate mutase type II; Region: CM_2; cl00693 1111068008634 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 1111068008635 Protein of unknown function (DUF2847); Region: DUF2847; pfam11009 1111068008636 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 1111068008637 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1111068008638 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1111068008639 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1111068008640 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1111068008641 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1111068008642 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1111068008643 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1111068008644 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 1111068008645 putative tRNA-binding site [nucleotide binding]; other site 1111068008646 hypothetical protein; Provisional; Region: PRK13668 1111068008647 NTPase; Reviewed; Region: PRK03114 1111068008648 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1111068008649 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1111068008650 oligomer interface [polypeptide binding]; other site 1111068008651 active site 1111068008652 metal binding site [ion binding]; metal-binding site 1111068008653 Predicted small secreted protein [Function unknown]; Region: COG5584 1111068008654 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1111068008655 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 1111068008656 S-adenosylmethionine binding site [chemical binding]; other site 1111068008657 YtzH-like protein; Region: YtzH; pfam14165 1111068008658 Phosphotransferase enzyme family; Region: APH; pfam01636 1111068008659 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 1111068008660 active site 1111068008661 substrate binding site [chemical binding]; other site 1111068008662 ATP binding site [chemical binding]; other site 1111068008663 pullulanase, type I; Region: pulA_typeI; TIGR02104 1111068008664 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 1111068008665 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 1111068008666 Ca binding site [ion binding]; other site 1111068008667 active site 1111068008668 catalytic site [active] 1111068008669 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1111068008670 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1111068008671 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1111068008672 sugar efflux transporter; Region: 2A0120; TIGR00899 1111068008673 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 1111068008674 putative substrate translocation pore; other site 1111068008675 dipeptidase PepV; Reviewed; Region: PRK07318 1111068008676 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1111068008677 active site 1111068008678 metal binding site [ion binding]; metal-binding site 1111068008679 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1111068008680 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1111068008681 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 1111068008682 RNA binding surface [nucleotide binding]; other site 1111068008683 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1111068008684 active site 1111068008685 uracil binding [chemical binding]; other site 1111068008686 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 1111068008687 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1111068008688 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1111068008689 HI0933-like protein; Region: HI0933_like; pfam03486 1111068008690 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1111068008691 Protein of unknown function (DUF2758); Region: DUF2758; pfam10957 1111068008692 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 1111068008693 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 1111068008694 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1111068008695 Thermolysin metallopeptidase, catalytic domain; Region: Peptidase_M4; pfam01447 1111068008696 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 1111068008697 active site 1111068008698 Zn binding site [ion binding]; other site 1111068008699 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1111068008700 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 1111068008701 non-specific DNA binding site [nucleotide binding]; other site 1111068008702 salt bridge; other site 1111068008703 sequence-specific DNA binding site [nucleotide binding]; other site 1111068008704 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 1111068008705 binding surface 1111068008706 TPR motif; other site 1111068008707 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1111068008708 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 1111068008709 active site residue [active] 1111068008710 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1111068008711 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1111068008712 HIGH motif; other site 1111068008713 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1111068008714 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1111068008715 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1111068008716 active site 1111068008717 KMSKS motif; other site 1111068008718 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1111068008719 tRNA binding surface [nucleotide binding]; other site 1111068008720 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 1111068008721 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1111068008722 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1111068008723 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 1111068008724 Protein of unknown function (DUF2524); Region: DUF2524; pfam10732 1111068008725 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 1111068008726 S-adenosylmethionine binding site [chemical binding]; other site 1111068008727 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 1111068008728 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1111068008729 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 1111068008730 trimer interface [polypeptide binding]; other site 1111068008731 putative metal binding site [ion binding]; other site 1111068008732 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1111068008733 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1111068008734 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1111068008735 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1111068008736 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 1111068008737 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1111068008738 active site 1111068008739 substrate-binding site [chemical binding]; other site 1111068008740 metal-binding site [ion binding] 1111068008741 ATP binding site [chemical binding]; other site 1111068008742 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1111068008743 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 1111068008744 Protein of unknown function (DUF2584); Region: DUF2584; pfam10763 1111068008745 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1111068008746 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1111068008747 NMT1-like family; Region: NMT1_2; pfam13379 1111068008748 NMT1/THI5 like; Region: NMT1; pfam09084 1111068008749 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1111068008750 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1111068008751 Walker A/P-loop; other site 1111068008752 ATP binding site [chemical binding]; other site 1111068008753 Q-loop/lid; other site 1111068008754 ABC transporter signature motif; other site 1111068008755 Walker B; other site 1111068008756 D-loop; other site 1111068008757 H-loop/switch region; other site 1111068008758 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1111068008759 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 1111068008760 dimer interface [polypeptide binding]; other site 1111068008761 conserved gate region; other site 1111068008762 putative PBP binding loops; other site 1111068008763 ABC-ATPase subunit interface; other site 1111068008764 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 1111068008765 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 1111068008766 nudix motif; other site 1111068008767 Holin family; Region: Phage_holin_4; pfam05105 1111068008768 Ferritin-like domain; Region: Ferritin; pfam00210 1111068008769 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1111068008770 dimerization interface [polypeptide binding]; other site 1111068008771 DPS ferroxidase diiron center [ion binding]; other site 1111068008772 ion pore; other site 1111068008773 Tumour necrosis factor receptor superfamily member 19; Region: RELT; pfam12606 1111068008774 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1111068008775 Haemolytic domain; Region: Haemolytic; pfam01809 1111068008776 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1111068008777 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 1111068008778 metal binding site [ion binding]; metal-binding site 1111068008779 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1111068008780 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1111068008781 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1111068008782 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1111068008783 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1111068008784 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1111068008785 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 1111068008786 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 1111068008787 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 1111068008788 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1111068008789 acyl-activating enzyme (AAE) consensus motif; other site 1111068008790 putative AMP binding site [chemical binding]; other site 1111068008791 putative active site [active] 1111068008792 putative CoA binding site [chemical binding]; other site 1111068008793 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 1111068008794 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1111068008795 substrate binding site [chemical binding]; other site 1111068008796 oxyanion hole (OAH) forming residues; other site 1111068008797 trimer interface [polypeptide binding]; other site 1111068008798 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 1111068008799 PGAP1-like protein; Region: PGAP1; pfam07819 1111068008800 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1111068008801 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1111068008802 dimer interface [polypeptide binding]; other site 1111068008803 tetramer interface [polypeptide binding]; other site 1111068008804 PYR/PP interface [polypeptide binding]; other site 1111068008805 TPP binding site [chemical binding]; other site 1111068008806 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1111068008807 TPP-binding site; other site 1111068008808 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 1111068008809 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1111068008810 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1111068008811 UbiA prenyltransferase family; Region: UbiA; pfam01040 1111068008812 regulatory protein, yteA family; Region: bacill_yteA; TIGR02890 1111068008813 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1111068008814 Probable transposase; Region: OrfB_IS605; pfam01385 1111068008815 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068008816 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 1111068008817 homodimer interface [polypeptide binding]; other site 1111068008818 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1111068008819 active site pocket [active] 1111068008820 glycogen synthase; Provisional; Region: glgA; PRK00654 1111068008821 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 1111068008822 ADP-binding pocket [chemical binding]; other site 1111068008823 homodimer interface [polypeptide binding]; other site 1111068008824 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 1111068008825 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1111068008826 ligand binding site; other site 1111068008827 oligomer interface; other site 1111068008828 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 1111068008829 dimer interface [polypeptide binding]; other site 1111068008830 N-terminal domain interface [polypeptide binding]; other site 1111068008831 sulfate 1 binding site; other site 1111068008832 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 1111068008833 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1111068008834 oligomer interface; other site 1111068008835 ligand binding site; other site 1111068008836 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 1111068008837 dimer interface [polypeptide binding]; other site 1111068008838 N-terminal domain interface [polypeptide binding]; other site 1111068008839 sulfate 1 binding site; other site 1111068008840 glycogen branching enzyme; Provisional; Region: PRK12313 1111068008841 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1111068008842 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1111068008843 active site 1111068008844 catalytic site [active] 1111068008845 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1111068008846 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1111068008847 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1111068008848 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1111068008849 putative acetyltransferase YhhY; Provisional; Region: PRK10140 1111068008850 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068008851 Coenzyme A binding pocket [chemical binding]; other site 1111068008852 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1111068008853 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1111068008854 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 1111068008855 ABC-ATPase subunit interface; other site 1111068008856 dimer interface [polypeptide binding]; other site 1111068008857 putative PBP binding regions; other site 1111068008858 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1111068008859 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 1111068008860 ABC-ATPase subunit interface; other site 1111068008861 dimer interface [polypeptide binding]; other site 1111068008862 putative PBP binding regions; other site 1111068008863 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 1111068008864 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 1111068008865 siderophore binding site; other site 1111068008866 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1111068008867 Protein of unknown function (DUF3221); Region: DUF3221; pfam11518 1111068008868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1111068008869 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1111068008870 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1111068008871 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068008872 transglutaminase; Provisional; Region: tgl; PRK03187 1111068008873 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1111068008874 EamA-like transporter family; Region: EamA; pfam00892 1111068008875 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1111068008876 MgtC family; Region: MgtC; pfam02308 1111068008877 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1111068008878 Staphylococcal nuclease homologues; Region: SNc; smart00318 1111068008879 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1111068008880 Catalytic site; other site 1111068008881 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1111068008882 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068008883 Coenzyme A binding pocket [chemical binding]; other site 1111068008884 Small acid-soluble spore protein H family; Region: SspH; pfam08141 1111068008885 Ion channel; Region: Ion_trans_2; pfam07885 1111068008886 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1111068008887 TrkA-N domain; Region: TrkA_N; pfam02254 1111068008888 YugN-like family; Region: YugN; pfam08868 1111068008889 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1111068008890 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 1111068008891 active site 1111068008892 dimer interface [polypeptide binding]; other site 1111068008893 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 1111068008894 dimer interface [polypeptide binding]; other site 1111068008895 active site 1111068008896 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1111068008897 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1111068008898 dimer interface [polypeptide binding]; other site 1111068008899 active site 1111068008900 metal binding site [ion binding]; metal-binding site 1111068008901 Domain of unknown function (DUF378); Region: DUF378; pfam04070 1111068008902 general stress protein 13; Validated; Region: PRK08059 1111068008903 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 1111068008904 RNA binding site [nucleotide binding]; other site 1111068008905 hypothetical protein; Validated; Region: PRK07682 1111068008906 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 1111068008907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068008908 homodimer interface [polypeptide binding]; other site 1111068008909 catalytic residue [active] 1111068008910 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1111068008911 AsnC family; Region: AsnC_trans_reg; pfam01037 1111068008912 Domain of unknown function (DUF1871); Region: DUF1871; pfam08958 1111068008913 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1111068008914 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 1111068008915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068008916 homodimer interface [polypeptide binding]; other site 1111068008917 catalytic residue [active] 1111068008918 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1111068008919 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1111068008920 E-class dimer interface [polypeptide binding]; other site 1111068008921 P-class dimer interface [polypeptide binding]; other site 1111068008922 active site 1111068008923 Cu2+ binding site [ion binding]; other site 1111068008924 Zn2+ binding site [ion binding]; other site 1111068008925 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 1111068008926 active site 1111068008927 catalytic site [active] 1111068008928 substrate binding site [chemical binding]; other site 1111068008929 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1111068008930 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 1111068008931 transmembrane helices; other site 1111068008932 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1111068008933 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1111068008934 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1111068008935 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; cl08294 1111068008936 Substrate-binding/catalytic site; other site 1111068008937 Zn-binding sites [ion binding]; other site 1111068008938 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 1111068008939 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1111068008940 cobalamin binding residues [chemical binding]; other site 1111068008941 putative BtuC binding residues; other site 1111068008942 dimer interface [polypeptide binding]; other site 1111068008943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 1111068008944 Putative membrane protein; Region: YuiB; pfam14068 1111068008945 chaperone protein DnaJ; Provisional; Region: PRK14279 1111068008946 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 1111068008947 nudix motif; other site 1111068008948 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1111068008949 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1111068008950 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1111068008951 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1111068008952 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1111068008953 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1111068008954 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1111068008955 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1111068008956 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1111068008957 hypothetical protein; Provisional; Region: PRK13669 1111068008958 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1111068008959 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1111068008960 Protein of unknown function (DUF1462); Region: DUF1462; pfam07315 1111068008961 NifU-like domain; Region: NifU; pfam01106 1111068008962 homoserine kinase; Provisional; Region: PRK01212 1111068008963 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1111068008964 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1111068008965 threonine synthase; Reviewed; Region: PRK06721 1111068008966 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 1111068008967 homodimer interface [polypeptide binding]; other site 1111068008968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068008969 catalytic residue [active] 1111068008970 homoserine dehydrogenase; Provisional; Region: PRK06349 1111068008971 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1111068008972 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1111068008973 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 1111068008974 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1111068008975 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1111068008976 dimerization interface [polypeptide binding]; other site 1111068008977 ligand binding site [chemical binding]; other site 1111068008978 NADP binding site [chemical binding]; other site 1111068008979 catalytic site [active] 1111068008980 spore coat protein YutH; Region: spore_yutH; TIGR02905 1111068008981 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1111068008982 tetramer interfaces [polypeptide binding]; other site 1111068008983 binuclear metal-binding site [ion binding]; other site 1111068008984 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1111068008985 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 1111068008986 active site 1111068008987 motif I; other site 1111068008988 motif II; other site 1111068008989 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 1111068008990 Uncharacterized conserved protein [Function unknown]; Region: COG2445 1111068008991 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 1111068008992 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 1111068008993 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 1111068008994 lipoyl synthase; Provisional; Region: PRK05481 1111068008995 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 1111068008996 FeS/SAM binding site; other site 1111068008997 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1111068008998 Peptidase family M23; Region: Peptidase_M23; pfam01551 1111068008999 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1111068009000 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1111068009001 Walker A/P-loop; other site 1111068009002 ATP binding site [chemical binding]; other site 1111068009003 Q-loop/lid; other site 1111068009004 ABC transporter signature motif; other site 1111068009005 Walker B; other site 1111068009006 D-loop; other site 1111068009007 H-loop/switch region; other site 1111068009008 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1111068009009 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1111068009010 Walker A/P-loop; other site 1111068009011 ATP binding site [chemical binding]; other site 1111068009012 Q-loop/lid; other site 1111068009013 ABC transporter signature motif; other site 1111068009014 Walker B; other site 1111068009015 D-loop; other site 1111068009016 H-loop/switch region; other site 1111068009017 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1111068009018 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 1111068009019 TM-ABC transporter signature motif; other site 1111068009020 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1111068009021 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 1111068009022 TM-ABC transporter signature motif; other site 1111068009023 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1111068009024 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 1111068009025 putative ligand binding site [chemical binding]; other site 1111068009026 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 1111068009027 Uncharacterized conserved protein [Function unknown]; Region: COG3377 1111068009028 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1111068009029 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1111068009030 active site 1111068009031 metal binding site [ion binding]; metal-binding site 1111068009032 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1111068009033 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1111068009034 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1111068009035 Uncharacterized conserved protein [Function unknown]; Region: COG1801 1111068009036 LysE type translocator; Region: LysE; cl00565 1111068009037 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1111068009038 Phage tail protein; Region: Sipho_tail; cl17486 1111068009039 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1111068009040 FeS assembly protein SufB; Region: sufB; TIGR01980 1111068009041 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1111068009042 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1111068009043 trimerization site [polypeptide binding]; other site 1111068009044 active site 1111068009045 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1111068009046 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 1111068009047 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1111068009048 catalytic residue [active] 1111068009049 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1111068009050 FeS assembly protein SufD; Region: sufD; TIGR01981 1111068009051 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1111068009052 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1111068009053 Walker A/P-loop; other site 1111068009054 ATP binding site [chemical binding]; other site 1111068009055 Q-loop/lid; other site 1111068009056 ABC transporter signature motif; other site 1111068009057 Walker B; other site 1111068009058 D-loop; other site 1111068009059 H-loop/switch region; other site 1111068009060 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1111068009061 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1111068009062 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1111068009063 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 1111068009064 dimer interface [polypeptide binding]; other site 1111068009065 conserved gate region; other site 1111068009066 ABC-ATPase subunit interface; other site 1111068009067 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1111068009068 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1111068009069 Walker A/P-loop; other site 1111068009070 ATP binding site [chemical binding]; other site 1111068009071 Q-loop/lid; other site 1111068009072 ABC transporter signature motif; other site 1111068009073 Walker B; other site 1111068009074 D-loop; other site 1111068009075 H-loop/switch region; other site 1111068009076 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 1111068009077 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 1111068009078 catalytic residues [active] 1111068009079 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 1111068009080 putative active site [active] 1111068009081 putative metal binding site [ion binding]; other site 1111068009082 Protein of unknown function (DUF2553); Region: DUF2553; pfam10830 1111068009083 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 1111068009084 lipoyl attachment site [posttranslational modification]; other site 1111068009085 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 1111068009086 ArsC family; Region: ArsC; pfam03960 1111068009087 putative ArsC-like catalytic residues; other site 1111068009088 putative TRX-like catalytic residues [active] 1111068009089 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1111068009090 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1111068009091 active site 1111068009092 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 1111068009093 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 1111068009094 dimer interface [polypeptide binding]; other site 1111068009095 active site 1111068009096 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1111068009097 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1111068009098 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1111068009099 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1111068009100 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1111068009101 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 1111068009102 substrate binding site [chemical binding]; other site 1111068009103 oxyanion hole (OAH) forming residues; other site 1111068009104 trimer interface [polypeptide binding]; other site 1111068009105 YuzL-like protein; Region: YuzL; pfam14115 1111068009106 Proline dehydrogenase; Region: Pro_dh; cl03282 1111068009107 Coat F domain; Region: Coat_F; pfam07875 1111068009108 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 1111068009109 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 1111068009110 inhibitor-cofactor binding pocket; inhibition site 1111068009111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068009112 catalytic residue [active] 1111068009113 AAA domain; Region: AAA_26; pfam13500 1111068009114 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 1111068009115 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 1111068009116 ADP binding site [chemical binding]; other site 1111068009117 BioY family; Region: BioY; pfam02632 1111068009118 pyruvate kinase; Provisional; Region: PRK14725 1111068009119 active site 1111068009120 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1111068009121 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1111068009122 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1111068009123 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1111068009124 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1111068009125 Walker A/P-loop; other site 1111068009126 ATP binding site [chemical binding]; other site 1111068009127 Q-loop/lid; other site 1111068009128 ABC transporter signature motif; other site 1111068009129 Walker B; other site 1111068009130 D-loop; other site 1111068009131 H-loop/switch region; other site 1111068009132 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1111068009133 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1111068009134 Walker A/P-loop; other site 1111068009135 ATP binding site [chemical binding]; other site 1111068009136 Q-loop/lid; other site 1111068009137 ABC transporter signature motif; other site 1111068009138 Walker B; other site 1111068009139 D-loop; other site 1111068009140 H-loop/switch region; other site 1111068009141 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1111068009142 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 1111068009143 TM-ABC transporter signature motif; other site 1111068009144 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1111068009145 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 1111068009146 TM-ABC transporter signature motif; other site 1111068009147 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1111068009148 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1111068009149 putative ligand binding site [chemical binding]; other site 1111068009150 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1111068009151 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1111068009152 DNA-binding site [nucleotide binding]; DNA binding site 1111068009153 FCD domain; Region: FCD; pfam07729 1111068009154 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 1111068009155 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1111068009156 NAD binding site [chemical binding]; other site 1111068009157 catalytic residues [active] 1111068009158 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 1111068009159 putative substrate binding pocket [chemical binding]; other site 1111068009160 trimer interface [polypeptide binding]; other site 1111068009161 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 1111068009162 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1111068009163 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 1111068009164 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1111068009165 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1111068009166 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1111068009167 dimer interface [polypeptide binding]; other site 1111068009168 active site 1111068009169 catalytic residue [active] 1111068009170 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 1111068009171 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 1111068009172 tetramer interface [polypeptide binding]; other site 1111068009173 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 1111068009174 tetramer interface [polypeptide binding]; other site 1111068009175 active site 1111068009176 metal binding site [ion binding]; metal-binding site 1111068009177 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-1; TIGR02309 1111068009178 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 1111068009179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1111068009180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1111068009181 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 1111068009182 dimerization interface [polypeptide binding]; other site 1111068009183 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1111068009184 dimanganese center [ion binding]; other site 1111068009185 Protein of unknown function (DUF2642); Region: DUF2642; pfam10842 1111068009186 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1111068009187 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1111068009188 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1111068009189 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 1111068009190 DNA binding residues [nucleotide binding] 1111068009191 dimerization interface [polypeptide binding]; other site 1111068009192 Staygreen protein; Region: Staygreen; pfam12638 1111068009193 RHS Repeat; Region: RHS_repeat; pfam05593 1111068009194 RHS Repeat; Region: RHS_repeat; pfam05593 1111068009195 RHS Repeat; Region: RHS_repeat; pfam05593 1111068009196 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 1111068009197 RHS Repeat; Region: RHS_repeat; pfam05593 1111068009198 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1111068009199 RHS Repeat; Region: RHS_repeat; pfam05593 1111068009200 RHS Repeat; Region: RHS_repeat; pfam05593 1111068009201 RHS Repeat; Region: RHS_repeat; pfam05593 1111068009202 RHS Repeat; Region: RHS_repeat; pfam05593 1111068009203 RHS Repeat; Region: RHS_repeat; pfam05593 1111068009204 RHS Repeat; Region: RHS_repeat; pfam05593 1111068009205 RHS Repeat; Region: RHS_repeat; pfam05593 1111068009206 RHS Repeat; Region: RHS_repeat; pfam05593 1111068009207 RHS protein; Region: RHS; pfam03527 1111068009208 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1111068009209 RHS protein; Region: RHS; pfam03527 1111068009210 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1111068009211 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 1111068009212 SmpB-tmRNA interface; other site 1111068009213 ribonuclease R; Region: RNase_R; TIGR02063 1111068009214 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1111068009215 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 1111068009216 RNB domain; Region: RNB; pfam00773 1111068009217 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 1111068009218 RNA binding site [nucleotide binding]; other site 1111068009219 Esterase/lipase [General function prediction only]; Region: COG1647 1111068009220 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1111068009221 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1111068009222 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 1111068009223 substrate binding pocket [chemical binding]; other site 1111068009224 catalytic triad [active] 1111068009225 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 1111068009226 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1111068009227 enolase; Provisional; Region: eno; PRK00077 1111068009228 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 1111068009229 dimer interface [polypeptide binding]; other site 1111068009230 metal binding site [ion binding]; metal-binding site 1111068009231 substrate binding pocket [chemical binding]; other site 1111068009232 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1111068009233 phosphoglyceromutase; Provisional; Region: PRK05434 1111068009234 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 1111068009235 triosephosphate isomerase; Provisional; Region: PRK14565 1111068009236 substrate binding site [chemical binding]; other site 1111068009237 dimer interface [polypeptide binding]; other site 1111068009238 catalytic triad [active] 1111068009239 Phosphoglycerate kinase; Region: PGK; pfam00162 1111068009240 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 1111068009241 substrate binding site [chemical binding]; other site 1111068009242 hinge regions; other site 1111068009243 ADP binding site [chemical binding]; other site 1111068009244 catalytic site [active] 1111068009245 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1111068009246 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1111068009247 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1111068009248 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1111068009249 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1111068009250 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1111068009251 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1111068009252 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1111068009253 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1111068009254 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1111068009255 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1111068009256 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1111068009257 oligomer interface [polypeptide binding]; other site 1111068009258 active site residues [active] 1111068009259 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 1111068009260 dimerization domain swap beta strand [polypeptide binding]; other site 1111068009261 regulatory protein interface [polypeptide binding]; other site 1111068009262 active site 1111068009263 regulatory phosphorylation site [posttranslational modification]; other site 1111068009264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1111068009265 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1111068009266 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1111068009267 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1111068009268 phosphate binding site [ion binding]; other site 1111068009269 putative substrate binding pocket [chemical binding]; other site 1111068009270 dimer interface [polypeptide binding]; other site 1111068009271 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1111068009272 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 1111068009273 putative active site [active] 1111068009274 nucleotide binding site [chemical binding]; other site 1111068009275 nudix motif; other site 1111068009276 putative metal binding site [ion binding]; other site 1111068009277 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1111068009278 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1111068009279 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1111068009280 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1111068009281 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 1111068009282 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1111068009283 putative active site [active] 1111068009284 putative NTP binding site [chemical binding]; other site 1111068009285 putative nucleic acid binding site [nucleotide binding]; other site 1111068009286 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1111068009287 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 1111068009288 binding surface 1111068009289 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1111068009290 TPR motif; other site 1111068009291 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 1111068009292 binding surface 1111068009293 TPR motif; other site 1111068009294 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1111068009295 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1111068009296 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 1111068009297 metal binding site [ion binding]; metal-binding site 1111068009298 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 1111068009299 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1111068009300 substrate binding site [chemical binding]; other site 1111068009301 glutamase interaction surface [polypeptide binding]; other site 1111068009302 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 1111068009303 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1111068009304 catalytic residues [active] 1111068009305 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1111068009306 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1111068009307 putative active site [active] 1111068009308 oxyanion strand; other site 1111068009309 catalytic triad [active] 1111068009310 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1111068009311 putative active site pocket [active] 1111068009312 4-fold oligomerization interface [polypeptide binding]; other site 1111068009313 metal binding residues [ion binding]; metal-binding site 1111068009314 3-fold/trimer interface [polypeptide binding]; other site 1111068009315 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 1111068009316 histidinol dehydrogenase; Region: hisD; TIGR00069 1111068009317 NAD binding site [chemical binding]; other site 1111068009318 dimerization interface [polypeptide binding]; other site 1111068009319 product binding site; other site 1111068009320 substrate binding site [chemical binding]; other site 1111068009321 zinc binding site [ion binding]; other site 1111068009322 catalytic residues [active] 1111068009323 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1111068009324 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1111068009325 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 1111068009326 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 1111068009327 dimer interface [polypeptide binding]; other site 1111068009328 motif 1; other site 1111068009329 active site 1111068009330 motif 2; other site 1111068009331 motif 3; other site 1111068009332 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1111068009333 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 1111068009334 trimer interface [polypeptide binding]; other site 1111068009335 active site 1111068009336 substrate binding site [chemical binding]; other site 1111068009337 CoA binding site [chemical binding]; other site 1111068009338 pyrophosphatase PpaX; Provisional; Region: PRK13288 1111068009339 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 1111068009340 active site 1111068009341 motif I; other site 1111068009342 motif II; other site 1111068009343 Nucleoside recognition; Region: Gate; pfam07670 1111068009344 Nucleoside recognition; Region: Gate; pfam07670 1111068009345 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 1111068009346 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1111068009347 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1111068009348 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 1111068009349 Hpr binding site; other site 1111068009350 active site 1111068009351 homohexamer subunit interaction site [polypeptide binding]; other site 1111068009352 Predicted membrane protein [Function unknown]; Region: COG1950 1111068009353 Tic20-like protein; Region: Tic20; pfam09685 1111068009354 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1111068009355 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1111068009356 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1111068009357 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1111068009358 excinuclease ABC subunit B; Provisional; Region: PRK05298 1111068009359 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 1111068009360 ATP binding site [chemical binding]; other site 1111068009361 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 1111068009362 nucleotide binding region [chemical binding]; other site 1111068009363 ATP-binding site [chemical binding]; other site 1111068009364 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1111068009365 Uncharacterized protein conserved in bacteria (DUF2198); Region: DUF2198; pfam09964 1111068009366 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1111068009367 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 1111068009368 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 1111068009369 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 1111068009370 DNA binding residues [nucleotide binding] 1111068009371 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1111068009372 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1111068009373 Ligand binding site; other site 1111068009374 Putative Catalytic site; other site 1111068009375 DXD motif; other site 1111068009376 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1111068009377 C-terminal peptidase (prc); Region: prc; TIGR00225 1111068009378 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 1111068009379 protein binding site [polypeptide binding]; other site 1111068009380 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1111068009381 Catalytic dyad [active] 1111068009382 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1111068009383 Pirin-related protein [General function prediction only]; Region: COG1741 1111068009384 Pirin; Region: Pirin; pfam02678 1111068009385 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1111068009386 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 1111068009387 metal-binding site [ion binding] 1111068009388 mercuric reductase; Region: MerA; TIGR02053 1111068009389 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1111068009390 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1111068009391 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1111068009392 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1111068009393 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 1111068009394 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1111068009395 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1111068009396 TAP-like protein; Region: Abhydrolase_4; pfam08386 1111068009397 Protein-interacting V-domain of mammalian Alix and related domains; Region: V_Alix_like; cl14654 1111068009398 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1111068009399 Peptidase family M23; Region: Peptidase_M23; pfam01551 1111068009400 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1111068009401 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1111068009402 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1111068009403 ATP-binding cassette domain of the cell division transporter; Region: ABC_FtsE_transporter; cd03292 1111068009404 Walker A/P-loop; other site 1111068009405 ATP binding site [chemical binding]; other site 1111068009406 Q-loop/lid; other site 1111068009407 ABC transporter signature motif; other site 1111068009408 Walker B; other site 1111068009409 D-loop; other site 1111068009410 H-loop/switch region; other site 1111068009411 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1111068009412 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1111068009413 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1111068009414 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1111068009415 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1111068009416 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1111068009417 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1111068009418 peptide chain release factor 2; Provisional; Region: PRK06746 1111068009419 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1111068009420 RF-1 domain; Region: RF-1; pfam00472 1111068009421 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1111068009422 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1111068009423 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1111068009424 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 1111068009425 nucleotide binding region [chemical binding]; other site 1111068009426 ATP-binding site [chemical binding]; other site 1111068009427 Uncharacterized conserved protein (DUF2036); Region: DUF2036; pfam09724 1111068009428 SEC-C motif; Region: SEC-C; pfam02810 1111068009429 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 1111068009430 30S subunit binding site; other site 1111068009431 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1111068009432 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1111068009433 Zn2+ binding site [ion binding]; other site 1111068009434 Mg2+ binding site [ion binding]; other site 1111068009435 Flagellar protein FliT; Region: FliT; pfam05400 1111068009436 flagellar protein FliS; Validated; Region: fliS; PRK05685 1111068009437 flagellar capping protein; Validated; Region: fliD; PRK07737 1111068009438 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1111068009439 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1111068009440 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1111068009441 flagellar protein FlaG; Provisional; Region: PRK07738 1111068009442 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 1111068009443 ADP-ribose binding site [chemical binding]; other site 1111068009444 rod shape-determining protein MreC; Region: mreC; TIGR00219 1111068009445 flagellin; Provisional; Region: PRK12804 1111068009446 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1111068009447 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1111068009448 carbon storage regulator; Provisional; Region: PRK01712 1111068009449 flagellar assembly protein FliW; Provisional; Region: PRK13285 1111068009450 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 1111068009451 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1111068009452 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1111068009453 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 1111068009454 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1111068009455 FlgN protein; Region: FlgN; pfam05130 1111068009456 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1111068009457 flagellar operon protein TIGR03826; Region: YvyF 1111068009458 Protein of unknown function (DUF327); Region: DUF327; pfam03885 1111068009459 flagellin; Provisional; Region: PRK12804 1111068009460 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1111068009461 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1111068009462 Flagellar protein FliS; Region: FliS; cl00654 1111068009463 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1111068009464 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1111068009465 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1111068009466 active site 1111068009467 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 1111068009468 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 1111068009469 ATP binding site [chemical binding]; other site 1111068009470 putative Mg++ binding site [ion binding]; other site 1111068009471 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 1111068009472 nucleotide binding region [chemical binding]; other site 1111068009473 ATP-binding site [chemical binding]; other site 1111068009474 EDD domain protein, DegV family; Region: DegV; TIGR00762 1111068009475 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1111068009476 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1111068009477 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 1111068009478 active site 1111068009479 phosphorylation site [posttranslational modification] 1111068009480 intermolecular recognition site; other site 1111068009481 dimerization interface [polypeptide binding]; other site 1111068009482 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 1111068009483 DNA binding residues [nucleotide binding] 1111068009484 dimerization interface [polypeptide binding]; other site 1111068009485 Sensor protein DegS; Region: DegS; pfam05384 1111068009486 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1111068009487 Histidine kinase; Region: HisKA_3; pfam07730 1111068009488 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 1111068009489 ATP binding site [chemical binding]; other site 1111068009490 Mg2+ binding site [ion binding]; other site 1111068009491 G-X-G motif; other site 1111068009492 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 1111068009493 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1111068009494 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1111068009495 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1111068009496 Bacterial SH3 domain; Region: SH3_3; pfam08239 1111068009497 Bacterial SH3 domain; Region: SH3_3; pfam08239 1111068009498 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1111068009499 Bacterial SH3 domain; Region: SH3_3; pfam08239 1111068009500 Bacterial SH3 domain; Region: SH3_3; pfam08239 1111068009501 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1111068009502 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1111068009503 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1111068009504 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 1111068009505 active site 1111068009506 metal binding site [ion binding]; metal-binding site 1111068009507 Bacterial SH3 domain; Region: SH3_3; cl17532 1111068009508 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1111068009509 Stage II sporulation protein; Region: SpoIID; pfam08486 1111068009510 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 1111068009511 putative glycosyl transferase; Provisional; Region: PRK10307 1111068009512 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 1111068009513 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 1111068009514 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1111068009515 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1111068009516 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 1111068009517 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 1111068009518 active site 1111068009519 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 1111068009520 homodimer interface [polypeptide binding]; other site 1111068009521 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1111068009522 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1111068009523 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 1111068009524 putative trimer interface [polypeptide binding]; other site 1111068009525 putative CoA binding site [chemical binding]; other site 1111068009526 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 1111068009527 putative trimer interface [polypeptide binding]; other site 1111068009528 putative active site [active] 1111068009529 putative substrate binding site [chemical binding]; other site 1111068009530 putative CoA binding site [chemical binding]; other site 1111068009531 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1111068009532 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1111068009533 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1111068009534 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1111068009535 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1111068009536 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1111068009537 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1111068009538 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 1111068009539 inhibitor-cofactor binding pocket; inhibition site 1111068009540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068009541 catalytic residue [active] 1111068009542 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1111068009543 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 1111068009544 Mg++ binding site [ion binding]; other site 1111068009545 putative catalytic motif [active] 1111068009546 substrate binding site [chemical binding]; other site 1111068009547 Probable transposase; Region: OrfB_IS605; pfam01385 1111068009548 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068009549 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1111068009550 preprotein translocase subunit SecA; Reviewed; Region: PRK09200 1111068009551 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 1111068009552 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 1111068009553 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1111068009554 nucleotide binding region [chemical binding]; other site 1111068009555 ATP-binding site [chemical binding]; other site 1111068009556 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1111068009557 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1111068009558 C-terminal peptidase (prc); Region: prc; TIGR00225 1111068009559 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 1111068009560 protein binding site [polypeptide binding]; other site 1111068009561 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1111068009562 Catalytic dyad [active] 1111068009563 Bacterial Ig-like domain; Region: Big_5; pfam13205 1111068009564 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1111068009565 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1111068009566 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 1111068009567 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1111068009568 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 1111068009569 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 1111068009570 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 1111068009571 generic binding surface II; other site 1111068009572 generic binding surface I; other site 1111068009573 Fn3 associated; Region: Fn3_assoc; pfam13287 1111068009574 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 1111068009575 generic binding surface I; other site 1111068009576 generic binding surface II; other site 1111068009577 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 1111068009578 putative active site [active] 1111068009579 putative catalytic site [active] 1111068009580 putative Mg binding site IVb [ion binding]; other site 1111068009581 putative phosphate binding site [ion binding]; other site 1111068009582 putative DNA binding site [nucleotide binding]; other site 1111068009583 putative Mg binding site IVa [ion binding]; other site 1111068009584 Transposase domain (DUF772); Region: DUF772; pfam05598 1111068009585 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068009586 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1111068009587 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 1111068009588 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 1111068009589 active site 1111068009590 metal binding site [ion binding]; metal-binding site 1111068009591 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1111068009592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 1111068009593 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1111068009594 Winged helix-turn helix; Region: HTH_33; pfam13592 1111068009595 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1111068009596 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1111068009597 Uncharacterized conserved protein [Function unknown]; Region: COG4127 1111068009598 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1111068009599 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1111068009600 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1111068009601 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1111068009602 active site 1111068009603 metal binding site [ion binding]; metal-binding site 1111068009604 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1111068009605 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068009606 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1111068009607 Probable transposase; Region: OrfB_IS605; pfam01385 1111068009608 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068009609 Domain of unknown function (DUF955); Region: DUF955; cl01076 1111068009610 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068009611 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068009612 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068009613 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1111068009614 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1111068009615 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1111068009616 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1111068009617 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1111068009618 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1111068009619 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1111068009620 NlpC/P60 family; Region: NLPC_P60; pfam00877 1111068009621 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1111068009622 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 1111068009623 non-specific DNA binding site [nucleotide binding]; other site 1111068009624 salt bridge; other site 1111068009625 sequence-specific DNA binding site [nucleotide binding]; other site 1111068009626 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1111068009627 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 1111068009628 dimer interface [polypeptide binding]; other site 1111068009629 ssDNA binding site [nucleotide binding]; other site 1111068009630 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1111068009631 YwpF-like protein; Region: YwpF; pfam14183 1111068009632 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 1111068009633 active site 1111068009634 catalytic site [active] 1111068009635 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1111068009636 aspartate kinase; Reviewed; Region: PRK09034 1111068009637 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 1111068009638 putative catalytic residues [active] 1111068009639 putative nucleotide binding site [chemical binding]; other site 1111068009640 putative aspartate binding site [chemical binding]; other site 1111068009641 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 1111068009642 allosteric regulatory residue; other site 1111068009643 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1111068009644 Protein of unknown function (DUF1284); Region: DUF1284; pfam06935 1111068009645 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1111068009646 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1111068009647 NAD(P) binding site [chemical binding]; other site 1111068009648 catalytic residues [active] 1111068009649 Protein of unknown function (DUF779); Region: DUF779; pfam05610 1111068009650 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 1111068009651 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1111068009652 putative substrate translocation pore; other site 1111068009653 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 1111068009654 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1111068009655 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1111068009656 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1111068009657 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1111068009658 nucleotide binding site [chemical binding]; other site 1111068009659 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1111068009660 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 1111068009661 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1111068009662 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1111068009663 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 1111068009664 dimerization interface [polypeptide binding]; other site 1111068009665 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 1111068009666 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 1111068009667 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1111068009668 dimer interface [polypeptide binding]; other site 1111068009669 active site 1111068009670 non-prolyl cis peptide bond; other site 1111068009671 insertion regions; other site 1111068009672 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1111068009673 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1111068009674 active site 1111068009675 non-prolyl cis peptide bond; other site 1111068009676 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1111068009677 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1111068009678 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1111068009679 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1111068009680 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1111068009681 Walker A/P-loop; other site 1111068009682 ATP binding site [chemical binding]; other site 1111068009683 Q-loop/lid; other site 1111068009684 ABC transporter signature motif; other site 1111068009685 Walker B; other site 1111068009686 D-loop; other site 1111068009687 H-loop/switch region; other site 1111068009688 NIL domain; Region: NIL; pfam09383 1111068009689 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 1111068009690 dimer interface [polypeptide binding]; other site 1111068009691 conserved gate region; other site 1111068009692 ABC-ATPase subunit interface; other site 1111068009693 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1111068009694 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1111068009695 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1111068009696 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1111068009697 active site 1111068009698 non-prolyl cis peptide bond; other site 1111068009699 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1111068009700 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1111068009701 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1111068009702 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 1111068009703 dimer interface [polypeptide binding]; other site 1111068009704 conserved gate region; other site 1111068009705 putative PBP binding loops; other site 1111068009706 ABC-ATPase subunit interface; other site 1111068009707 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1111068009708 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 1111068009709 dimer interface [polypeptide binding]; other site 1111068009710 conserved gate region; other site 1111068009711 putative PBP binding loops; other site 1111068009712 ABC-ATPase subunit interface; other site 1111068009713 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1111068009714 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1111068009715 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1111068009716 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 1111068009717 Response regulator receiver domain; Region: Response_reg; pfam00072 1111068009718 active site 1111068009719 phosphorylation site [posttranslational modification] 1111068009720 intermolecular recognition site; other site 1111068009721 dimerization interface [polypeptide binding]; other site 1111068009722 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1111068009723 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1111068009724 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1111068009725 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1111068009726 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 1111068009727 dimerization interface [polypeptide binding]; other site 1111068009728 Histidine kinase; Region: His_kinase; pfam06580 1111068009729 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 1111068009730 ATP binding site [chemical binding]; other site 1111068009731 Mg2+ binding site [ion binding]; other site 1111068009732 G-X-G motif; other site 1111068009733 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1111068009734 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1111068009735 ligand binding site [chemical binding]; other site 1111068009736 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 1111068009737 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1111068009738 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1111068009739 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1111068009740 NAD binding site [chemical binding]; other site 1111068009741 sugar binding site [chemical binding]; other site 1111068009742 divalent metal binding site [ion binding]; other site 1111068009743 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1111068009744 dimer interface [polypeptide binding]; other site 1111068009745 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1111068009746 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1111068009747 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 1111068009748 putative active site [active] 1111068009749 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1111068009750 beta-galactosidase; Region: BGL; TIGR03356 1111068009751 FAD binding domain; Region: FAD_binding_4; pfam01565 1111068009752 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1111068009753 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1111068009754 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 1111068009755 alpha subunit interface [polypeptide binding]; other site 1111068009756 TPP binding site [chemical binding]; other site 1111068009757 heterodimer interface [polypeptide binding]; other site 1111068009758 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1111068009759 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1111068009760 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 1111068009761 TPP-binding site [chemical binding]; other site 1111068009762 tetramer interface [polypeptide binding]; other site 1111068009763 heterodimer interface [polypeptide binding]; other site 1111068009764 phosphorylation loop region [posttranslational modification] 1111068009765 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1111068009766 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 1111068009767 E3 interaction surface; other site 1111068009768 lipoyl attachment site [posttranslational modification]; other site 1111068009769 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1111068009770 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_1; cd08352 1111068009771 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1111068009772 putative metal binding site [ion binding]; other site 1111068009773 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1111068009774 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1111068009775 Domain of unknown function (DUF4275); Region: DUF4275; pfam14101 1111068009776 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1111068009777 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1111068009778 active site 1111068009779 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1111068009780 arsenical-resistance protein; Region: acr3; TIGR00832 1111068009781 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 1111068009782 dimerization interface [polypeptide binding]; other site 1111068009783 putative DNA binding site [nucleotide binding]; other site 1111068009784 putative Zn2+ binding site [ion binding]; other site 1111068009785 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 1111068009786 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1111068009787 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1111068009788 ligand binding site [chemical binding]; other site 1111068009789 dimerization interface [polypeptide binding]; other site 1111068009790 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1111068009791 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1111068009792 TM-ABC transporter signature motif; other site 1111068009793 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1111068009794 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1111068009795 Walker A/P-loop; other site 1111068009796 ATP binding site [chemical binding]; other site 1111068009797 Q-loop/lid; other site 1111068009798 ABC transporter signature motif; other site 1111068009799 Walker B; other site 1111068009800 D-loop; other site 1111068009801 H-loop/switch region; other site 1111068009802 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1111068009803 D-ribose pyranase; Provisional; Region: PRK11797 1111068009804 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1111068009805 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 1111068009806 substrate binding site [chemical binding]; other site 1111068009807 dimer interface [polypeptide binding]; other site 1111068009808 ATP binding site [chemical binding]; other site 1111068009809 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1111068009810 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1111068009811 DNA binding site [nucleotide binding] 1111068009812 domain linker motif; other site 1111068009813 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 1111068009814 dimerization interface [polypeptide binding]; other site 1111068009815 ligand binding site [chemical binding]; other site 1111068009816 sodium binding site [ion binding]; other site 1111068009817 Predicted integral membrane protein [Function unknown]; Region: COG5652 1111068009818 DDE superfamily endonuclease; Region: DDE_5; cl17874 1111068009819 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068009820 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 1111068009821 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068009822 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068009823 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1111068009824 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 1111068009825 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1111068009826 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1111068009827 metal binding site [ion binding]; metal-binding site 1111068009828 dimer interface [polypeptide binding]; other site 1111068009829 amidase, hydantoinase/carbamoylase family; Region: hydantase; TIGR01879 1111068009830 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1111068009831 active site 1111068009832 metal binding site [ion binding]; metal-binding site 1111068009833 dimer interface [polypeptide binding]; other site 1111068009834 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1111068009835 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1111068009836 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1111068009837 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1111068009838 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1111068009839 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1111068009840 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1111068009841 Integrase core domain; Region: rve; pfam00665 1111068009842 Winged helix-turn helix; Region: HTH_29; pfam13551 1111068009843 Homeodomain-like domain; Region: HTH_32; pfam13565 1111068009844 Integrase core domain; Region: rve; pfam00665 1111068009845 Integrase core domain; Region: rve_3; pfam13683 1111068009846 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1111068009847 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1111068009848 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 1111068009849 Walker A motif; other site 1111068009850 ATP binding site [chemical binding]; other site 1111068009851 Walker B motif; other site 1111068009852 arginine finger; other site 1111068009853 Period protein 2/3C-terminal region; Region: Period_C; pfam12114 1111068009854 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1111068009855 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1111068009856 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1111068009857 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 1111068009858 Catalytic site [active] 1111068009859 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1111068009860 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068009861 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1111068009862 Bacterial SH3 domain; Region: SH3_3; pfam08239 1111068009863 Bacterial SH3 domain; Region: SH3_3; pfam08239 1111068009864 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1111068009865 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 1111068009866 active site 1111068009867 metal binding site [ion binding]; metal-binding site 1111068009868 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 1111068009869 SEC-C motif; Region: SEC-C; pfam02810 1111068009870 SEC-C motif; Region: SEC-C; pfam02810 1111068009871 SEC-C motif; Region: SEC-C; pfam02810 1111068009872 Uncharacterized conserved protein [Function unknown]; Region: COG4715 1111068009873 SNF2 Helicase protein; Region: DUF3670; pfam12419 1111068009874 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1111068009875 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 1111068009876 ATP binding site [chemical binding]; other site 1111068009877 putative Mg++ binding site [ion binding]; other site 1111068009878 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 1111068009879 nucleotide binding region [chemical binding]; other site 1111068009880 ATP-binding site [chemical binding]; other site 1111068009881 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 1111068009882 Macro domain, Unknown family 2. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases)...; Region: Macro_2; cd03330 1111068009883 putative ADP-ribose binding site [chemical binding]; other site 1111068009884 Protein of unknown function, DUF488; Region: DUF488; cl01246 1111068009885 AAA domain; Region: AAA_21; pfam13304 1111068009886 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1111068009887 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1111068009888 active site 1111068009889 tetramer interface; other site 1111068009890 Predicted glycosylase [Carbohydrate transport and metabolism]; Region: COG2152 1111068009891 active site 1111068009892 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 1111068009893 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1111068009894 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 1111068009895 dimer interface [polypeptide binding]; other site 1111068009896 conserved gate region; other site 1111068009897 ABC-ATPase subunit interface; other site 1111068009898 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1111068009899 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 1111068009900 dimer interface [polypeptide binding]; other site 1111068009901 conserved gate region; other site 1111068009902 putative PBP binding loops; other site 1111068009903 ABC-ATPase subunit interface; other site 1111068009904 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1111068009905 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1111068009906 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1111068009907 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1111068009908 DNA binding site [nucleotide binding] 1111068009909 domain linker motif; other site 1111068009910 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_1; cd06277 1111068009911 putative dimerization interface [polypeptide binding]; other site 1111068009912 putative ligand binding site [chemical binding]; other site 1111068009913 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 1111068009914 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1111068009915 EamA-like transporter family; Region: EamA; cl17759 1111068009916 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1111068009917 Probable transposase; Region: OrfB_IS605; pfam01385 1111068009918 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1111068009919 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1111068009920 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1111068009921 Protein of unknown function DUF262; Region: DUF262; pfam03235 1111068009922 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1111068009923 Uncharacterized conserved protein [Function unknown]; Region: COG3472 1111068009924 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1111068009925 Coenzyme A binding pocket [chemical binding]; other site 1111068009926 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 1111068009927 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 1111068009928 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1111068009929 Winged helix-turn helix; Region: HTH_29; pfam13551 1111068009930 Homeodomain-like domain; Region: HTH_32; pfam13565 1111068009931 Integrase core domain; Region: rve; pfam00665 1111068009932 Integrase core domain; Region: rve_3; pfam13683 1111068009933 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1111068009934 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1111068009935 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 1111068009936 Walker A motif; other site 1111068009937 ATP binding site [chemical binding]; other site 1111068009938 Walker B motif; other site 1111068009939 arginine finger; other site 1111068009940 Transposase IS200 like; Region: Y1_Tnp; cl00848 1111068009941 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1111068009942 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1111068009943 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 1111068009944 Walker A motif; other site 1111068009945 ATP binding site [chemical binding]; other site 1111068009946 Walker B motif; other site 1111068009947 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1111068009948 HipA N-terminal domain; Region: Couple_hipA; cl11853 1111068009949 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 1111068009950 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1111068009951 Caspase domain; Region: Peptidase_C14; pfam00656 1111068009952 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1111068009953 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1111068009954 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1111068009955 Protein of unknown function DUF262; Region: DUF262; pfam03235 1111068009956 Protein of unknown function DUF262; Region: DUF262; pfam03235 1111068009957 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1111068009958 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 1111068009959 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 1111068009960 inhibitor-cofactor binding pocket; inhibition site 1111068009961 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1111068009962 catalytic residue [active] 1111068009963 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 1111068009964 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1111068009965 putative trimer interface [polypeptide binding]; other site 1111068009966 putative CoA binding site [chemical binding]; other site 1111068009967 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1111068009968 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1111068009969 UDP-glucose 4-epimerase; Region: PLN02240 1111068009970 NAD binding site [chemical binding]; other site 1111068009971 homodimer interface [polypeptide binding]; other site 1111068009972 active site 1111068009973 substrate binding site [chemical binding]; other site 1111068009974 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1111068009975 putative ADP-binding pocket [chemical binding]; other site 1111068009976 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1111068009977 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1111068009978 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1111068009979 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1111068009980 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1111068009981 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1111068009982 putative NAD(P) binding site [chemical binding]; other site 1111068009983 active site 1111068009984 putative substrate binding site [chemical binding]; other site 1111068009985 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1111068009986 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1111068009987 putative ADP-binding pocket [chemical binding]; other site 1111068009988 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1111068009989 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 1111068009990 putative ADP-binding pocket [chemical binding]; other site 1111068009991 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1111068009992 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1111068009993 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1111068009994 putative ADP-binding pocket [chemical binding]; other site 1111068009995 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1111068009996 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 1111068009997 active site 1111068009998 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1111068009999 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1111068010000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1111068010001 Bacterial sugar transferase; Region: Bac_transf; cl00939 1111068010002 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1111068010003 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1111068010004 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1111068010005 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1111068010006 membrane-bound transcriptional regulator LytR; Provisional; Region: PRK09379 1111068010007 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 1111068010008 active site 1111068010009 oxyanion hole [active] 1111068010010 catalytic triad [active] 1111068010011 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1111068010012 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 1111068010013 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1111068010014 Chain length determinant protein; Region: Wzz; cl15801 1111068010015 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 1111068010016 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 1111068010017 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 1111068010018 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1111068010019 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1111068010020 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 1111068010021 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1111068010022 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1111068010023 rod shape-determining protein Mbl; Provisional; Region: PRK13928 1111068010024 MreB and similar proteins; Region: MreB_like; cd10225 1111068010025 nucleotide binding site [chemical binding]; other site 1111068010026 Mg binding site [ion binding]; other site 1111068010027 putative protofilament interaction site [polypeptide binding]; other site 1111068010028 RodZ interaction site [polypeptide binding]; other site 1111068010029 Stage III sporulation protein D; Region: SpoIIID; pfam12116 1111068010030 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 1111068010031 Chromate transporter; Region: Chromate_transp; pfam02417 1111068010032 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1111068010033 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1111068010034 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1111068010035 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1111068010036 Peptidase family M23; Region: Peptidase_M23; pfam01551 1111068010037 stage II sporulation protein D; Region: spore_II_D; TIGR02870 1111068010038 Stage II sporulation protein; Region: SpoIID; pfam08486 1111068010039 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1111068010040 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 1111068010041 hinge; other site 1111068010042 active site 1111068010043 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 1111068010044 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 1111068010045 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1111068010046 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1111068010047 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1111068010048 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1111068010049 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1111068010050 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1111068010051 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1111068010052 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1111068010053 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1111068010054 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1111068010055 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1111068010056 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1111068010057 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1111068010058 NADH dehydrogenase subunit D; Provisional; Region: PRK12322 1111068010059 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1111068010060 NADH dehydrogenase subunit C; Validated; Region: PRK07735 1111068010061 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1111068010062 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1111068010063 NADH dehydrogenase subunit A; Validated; Region: PRK07756 1111068010064 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1111068010065 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1111068010066 gamma subunit interface [polypeptide binding]; other site 1111068010067 epsilon subunit interface [polypeptide binding]; other site 1111068010068 LBP interface [polypeptide binding]; other site 1111068010069 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1111068010070 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1111068010071 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 1111068010072 alpha subunit interaction interface [polypeptide binding]; other site 1111068010073 Walker A motif; other site 1111068010074 ATP binding site [chemical binding]; other site 1111068010075 Walker B motif; other site 1111068010076 inhibitor binding site; inhibition site 1111068010077 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1111068010078 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1111068010079 core domain interface [polypeptide binding]; other site 1111068010080 delta subunit interface [polypeptide binding]; other site 1111068010081 epsilon subunit interface [polypeptide binding]; other site 1111068010082 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1111068010083 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1111068010084 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 1111068010085 beta subunit interaction interface [polypeptide binding]; other site 1111068010086 Walker A motif; other site 1111068010087 ATP binding site [chemical binding]; other site 1111068010088 Walker B motif; other site 1111068010089 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1111068010090 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1111068010091 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1111068010092 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1111068010093 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1111068010094 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1111068010095 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1111068010096 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1111068010097 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1111068010098 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1111068010099 active site 1111068010100 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1111068010101 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 1111068010102 dimer interface [polypeptide binding]; other site 1111068010103 active site 1111068010104 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1111068010105 folate binding site [chemical binding]; other site 1111068010106 hypothetical protein; Provisional; Region: PRK13690 1111068010107 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1111068010108 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 1111068010109 dimerization interface [polypeptide binding]; other site 1111068010110 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1111068010111 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1111068010112 dimer interface [polypeptide binding]; other site 1111068010113 putative CheW interface [polypeptide binding]; other site 1111068010114 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1111068010115 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1111068010116 active site 1111068010117 Predicted membrane protein [Function unknown]; Region: COG1971 1111068010118 Domain of unknown function DUF; Region: DUF204; pfam02659 1111068010119 Domain of unknown function DUF; Region: DUF204; pfam02659 1111068010120 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1111068010121 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1111068010122 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 1111068010123 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1111068010124 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 1111068010125 S-adenosylmethionine binding site [chemical binding]; other site 1111068010126 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1111068010127 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1111068010128 RF-1 domain; Region: RF-1; pfam00472 1111068010129 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 1111068010130 thymidine kinase; Provisional; Region: PRK04296 1111068010131 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1111068010132 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1111068010133 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1111068010134 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 1111068010135 RNA binding site [nucleotide binding]; other site 1111068010136 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 1111068010137 multimer interface [polypeptide binding]; other site 1111068010138 Walker A motif; other site 1111068010139 ATP binding site [chemical binding]; other site 1111068010140 Walker B motif; other site 1111068010141 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 1111068010142 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1111068010143 putative active site [active] 1111068010144 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1111068010145 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 1111068010146 hinge; other site 1111068010147 active site 1111068010148 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1111068010149 active site 1111068010150 intersubunit interactions; other site 1111068010151 catalytic residue [active] 1111068010152 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1111068010153 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 1111068010154 intersubunit interface [polypeptide binding]; other site 1111068010155 active site 1111068010156 zinc binding site [ion binding]; other site 1111068010157 Na+ binding site [ion binding]; other site 1111068010158 Response regulator receiver domain; Region: Response_reg; pfam00072 1111068010159 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 1111068010160 active site 1111068010161 phosphorylation site [posttranslational modification] 1111068010162 intermolecular recognition site; other site 1111068010163 dimerization interface [polypeptide binding]; other site 1111068010164 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 1111068010165 CTP synthetase; Validated; Region: pyrG; PRK05380 1111068010166 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 1111068010167 Catalytic site [active] 1111068010168 active site 1111068010169 UTP binding site [chemical binding]; other site 1111068010170 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1111068010171 active site 1111068010172 putative oxyanion hole; other site 1111068010173 catalytic triad [active] 1111068010174 potential frameshift: common BLAST hit: gi|56421925|ref|YP_149243.1| DNA-directed RNA polymerase subunit delta 1111068010175 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 1111068010176 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 1111068010177 B12 binding site [chemical binding]; other site 1111068010178 cobalt ligand [ion binding]; other site 1111068010179 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 1111068010180 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 1111068010181 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 1111068010182 putative active site [active] 1111068010183 putative substrate binding site [chemical binding]; other site 1111068010184 putative coenzyme B12 binding site [chemical binding]; other site 1111068010185 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1111068010186 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1111068010187 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1111068010188 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 1111068010189 FAD binding site [chemical binding]; other site 1111068010190 homotetramer interface [polypeptide binding]; other site 1111068010191 substrate binding pocket [chemical binding]; other site 1111068010192 catalytic base [active] 1111068010193 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1111068010194 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 1111068010195 FAD binding site [chemical binding]; other site 1111068010196 homotetramer interface [polypeptide binding]; other site 1111068010197 substrate binding pocket [chemical binding]; other site 1111068010198 catalytic base [active] 1111068010199 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 1111068010200 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1111068010201 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1111068010202 acetyl-CoA acetyltransferase; Provisional; Region: PRK08235 1111068010203 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 1111068010204 dimer interface [polypeptide binding]; other site 1111068010205 active site 1111068010206 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1111068010207 4Fe-4S binding domain; Region: Fer4; cl02805 1111068010208 Cysteine-rich domain; Region: CCG; pfam02754 1111068010209 Cysteine-rich domain; Region: CCG; pfam02754 1111068010210 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1111068010211 PLD-like domain; Region: PLDc_2; pfam13091 1111068010212 putative active site [active] 1111068010213 catalytic site [active] 1111068010214 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1111068010215 PLD-like domain; Region: PLDc_2; pfam13091 1111068010216 putative active site [active] 1111068010217 catalytic site [active] 1111068010218 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1111068010219 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1111068010220 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1111068010221 active site 1111068010222 HIGH motif; other site 1111068010223 KMSK motif region; other site 1111068010224 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1111068010225 tRNA binding surface [nucleotide binding]; other site 1111068010226 anticodon binding site; other site 1111068010227 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 1111068010228 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 1111068010229 agmatinase; Region: agmatinase; TIGR01230 1111068010230 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 1111068010231 putative active site [active] 1111068010232 Mn binding site [ion binding]; other site 1111068010233 spermidine synthase; Provisional; Region: PRK00811 1111068010234 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 1111068010235 Transglycosylase; Region: Transgly; pfam00912 1111068010236 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1111068010237 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1111068010238 YwhD family; Region: YwhD; pfam08741 1111068010239 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 1111068010240 Peptidase family M50; Region: Peptidase_M50; pfam02163 1111068010241 active site 1111068010242 putative substrate binding region [chemical binding]; other site 1111068010243 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 1111068010244 active site 1 [active] 1111068010245 dimer interface [polypeptide binding]; other site 1111068010246 hexamer interface [polypeptide binding]; other site 1111068010247 active site 2 [active] 1111068010248 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1111068010249 Uncharacterized conserved protein [Function unknown]; Region: COG3465 1111068010250 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1111068010251 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1111068010252 Zn2+ binding site [ion binding]; other site 1111068010253 Mg2+ binding site [ion binding]; other site 1111068010254 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 1111068010255 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 1111068010256 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 1111068010257 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1111068010258 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1111068010259 putative heme peroxidase; Provisional; Region: PRK12276 1111068010260 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1111068010261 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; pfam09671 1111068010262 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 1111068010263 UbiA prenyltransferase family; Region: UbiA; pfam01040 1111068010264 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1111068010265 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1111068010266 ligand binding site [chemical binding]; other site 1111068010267 active site 1111068010268 UGI interface [polypeptide binding]; other site 1111068010269 catalytic site [active] 1111068010270 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1111068010271 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 1111068010272 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1111068010273 anti sigma factor interaction site; other site 1111068010274 regulatory phosphorylation site [posttranslational modification]; other site 1111068010275 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1111068010276 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 1111068010277 ATP binding site [chemical binding]; other site 1111068010278 Mg2+ binding site [ion binding]; other site 1111068010279 G-X-G motif; other site 1111068010280 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 1111068010281 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1111068010282 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1111068010283 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 1111068010284 DNA binding residues [nucleotide binding] 1111068010285 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 1111068010286 PAS domain; Region: PAS_9; pfam13426 1111068010287 putative active site [active] 1111068010288 heme pocket [chemical binding]; other site 1111068010289 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1111068010290 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1111068010291 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1111068010292 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 1111068010293 motif 1; other site 1111068010294 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 1111068010295 active site 1111068010296 motif 2; other site 1111068010297 motif 3; other site 1111068010298 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 1111068010299 anticodon binding site; other site 1111068010300 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1111068010301 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 1111068010302 active site 1111068010303 benzoate transport; Region: 2A0115; TIGR00895 1111068010304 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 1111068010305 putative substrate translocation pore; other site 1111068010306 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1111068010307 HPr interaction site; other site 1111068010308 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1111068010309 active site 1111068010310 phosphorylation site [posttranslational modification] 1111068010311 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1111068010312 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1111068010313 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1111068010314 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1111068010315 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1111068010316 hexamer interface [polypeptide binding]; other site 1111068010317 ligand binding site [chemical binding]; other site 1111068010318 putative active site [active] 1111068010319 NAD(P) binding site [chemical binding]; other site 1111068010320 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 1111068010321 putative active site [active] 1111068010322 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 1111068010323 dimer interface [polypeptide binding]; other site 1111068010324 substrate binding site [chemical binding]; other site 1111068010325 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1111068010326 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 1111068010327 putative active site [active] 1111068010328 catalytic triad [active] 1111068010329 putative dimer interface [polypeptide binding]; other site 1111068010330 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1111068010331 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1111068010332 Na binding site [ion binding]; other site 1111068010333 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1111068010334 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 1111068010335 substrate binding pocket [chemical binding]; other site 1111068010336 membrane-bound complex binding site; other site 1111068010337 hinge residues; other site 1111068010338 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 1111068010339 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1111068010340 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 1111068010341 dimer interface [polypeptide binding]; other site 1111068010342 conserved gate region; other site 1111068010343 putative PBP binding loops; other site 1111068010344 ABC-ATPase subunit interface; other site 1111068010345 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1111068010346 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1111068010347 Walker A/P-loop; other site 1111068010348 ATP binding site [chemical binding]; other site 1111068010349 Q-loop/lid; other site 1111068010350 ABC transporter signature motif; other site 1111068010351 Walker B; other site 1111068010352 D-loop; other site 1111068010353 H-loop/switch region; other site 1111068010354 Probable transposase; Region: OrfB_IS605; pfam01385 1111068010355 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1111068010356 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1111068010357 cytochrome aa3 quinol oxidase, subunit IV; Region: QoxD; TIGR02901 1111068010358 Ubiquinol oxidase subunit III subfamily. 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...; Region: Ubiquinol_oxidase_III; cd02863 1111068010359 Subunit I/III interface [polypeptide binding]; other site 1111068010360 Subunit III/IV interface [polypeptide binding]; other site 1111068010361 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1111068010362 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 1111068010363 D-pathway; other site 1111068010364 Putative ubiquinol binding site [chemical binding]; other site 1111068010365 Low-spin heme (heme b) binding site [chemical binding]; other site 1111068010366 Putative water exit pathway; other site 1111068010367 Binuclear center (heme o3/CuB) [ion binding]; other site 1111068010368 K-pathway; other site 1111068010369 Putative proton exit pathway; other site 1111068010370 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 1111068010371 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1111068010372 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1111068010373 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1111068010374 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1111068010375 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1111068010376 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1111068010377 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1111068010378 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 1111068010379 [2Fe-2S] cluster binding site [ion binding]; other site 1111068010380 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1111068010381 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 1111068010382 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1111068010383 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1111068010384 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1111068010385 metal binding site [ion binding]; metal-binding site 1111068010386 active site 1111068010387 I-site; other site 1111068010388 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1111068010389 CxxH/CxxC protein, BA_5709 family; Region: CxxH_BA5709; TIGR04129 1111068010390 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1111068010391 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 1111068010392 protein binding site [polypeptide binding]; other site 1111068010393 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1111068010394 YycH protein; Region: YycI; pfam09648 1111068010395 YycH protein; Region: YycH; pfam07435 1111068010396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 1111068010397 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1111068010398 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 1111068010399 dimerization interface [polypeptide binding]; other site 1111068010400 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 1111068010401 putative active site [active] 1111068010402 heme pocket [chemical binding]; other site 1111068010403 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 1111068010404 dimer interface [polypeptide binding]; other site 1111068010405 phosphorylation site [posttranslational modification] 1111068010406 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 1111068010407 ATP binding site [chemical binding]; other site 1111068010408 Mg2+ binding site [ion binding]; other site 1111068010409 G-X-G motif; other site 1111068010410 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1111068010411 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 1111068010412 active site 1111068010413 phosphorylation site [posttranslational modification] 1111068010414 intermolecular recognition site; other site 1111068010415 dimerization interface [polypeptide binding]; other site 1111068010416 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 1111068010417 DNA binding site [nucleotide binding] 1111068010418 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1111068010419 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 1111068010420 GDP-binding site [chemical binding]; other site 1111068010421 ACT binding site; other site 1111068010422 IMP binding site; other site 1111068010423 replicative DNA helicase; Provisional; Region: PRK05748 1111068010424 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1111068010425 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 1111068010426 Walker A motif; other site 1111068010427 ATP binding site [chemical binding]; other site 1111068010428 Walker B motif; other site 1111068010429 DNA binding loops [nucleotide binding] 1111068010430 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1111068010431 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1111068010432 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1111068010433 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1111068010434 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1111068010435 DHH family; Region: DHH; pfam01368 1111068010436 DHHA1 domain; Region: DHHA1; pfam02272 1111068010437 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 1111068010438 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1111068010439 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1111068010440 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 1111068010441 dimer interface [polypeptide binding]; other site 1111068010442 ssDNA binding site [nucleotide binding]; other site 1111068010443 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1111068010444 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1111068010445 GTP-binding protein YchF; Reviewed; Region: PRK09601 1111068010446 YchF GTPase; Region: YchF; cd01900 1111068010447 G1 box; other site 1111068010448 GTP/Mg2+ binding site [chemical binding]; other site 1111068010449 Switch I region; other site 1111068010450 G2 box; other site 1111068010451 Switch II region; other site 1111068010452 G3 box; other site 1111068010453 G4 box; other site 1111068010454 G5 box; other site 1111068010455 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 1111068010456 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1111068010457 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 1111068010458 putative [4Fe-4S] binding site [ion binding]; other site 1111068010459 putative molybdopterin cofactor binding site [chemical binding]; other site 1111068010460 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 1111068010461 molybdopterin cofactor binding site; other site 1111068010462 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 1111068010463 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1111068010464 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1111068010465 putative sporulation protein YyaC; Region: spore_YyaC; TIGR02841 1111068010466 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1111068010467 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1111068010468 ParB-like nuclease domain; Region: ParB; smart00470 1111068010469 KorB domain; Region: KorB; pfam08535 1111068010470 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1111068010471 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 1111068010472 P-loop; other site 1111068010473 Magnesium ion binding site [ion binding]; other site 1111068010474 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 1111068010475 Magnesium ion binding site [ion binding]; other site 1111068010476 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 1111068010477 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 1111068010478 ParB-like nuclease domain; Region: ParBc; pfam02195 1111068010479 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1111068010480 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1111068010481 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1111068010482 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1111068010483 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1111068010484 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1111068010485 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1111068010486 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1111068010487 G1 box; other site 1111068010488 GTP/Mg2+ binding site [chemical binding]; other site 1111068010489 Switch I region; other site 1111068010490 G2 box; other site 1111068010491 Switch II region; other site 1111068010492 G3 box; other site 1111068010493 G4 box; other site 1111068010494 G5 box; other site 1111068010495 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1111068010496 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1111068010497 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 1111068010498 G-X-X-G motif; other site 1111068010499 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 1111068010500 RxxxH motif; other site 1111068010501 OxaA-like protein precursor; Validated; Region: PRK02944 1111068010502 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1111068010503 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1111068010504 Ribosomal protein L34; Region: Ribosomal_L34; cl00370