-- dump date 20140619_101747 -- class Genbank::misc_feature -- table misc_feature_note -- id note 550542000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 550542000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 550542000003 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 550542000004 Walker A motif; other site 550542000005 ATP binding site [chemical binding]; other site 550542000006 Walker B motif; other site 550542000007 arginine finger; other site 550542000008 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 550542000009 DnaA box-binding interface [nucleotide binding]; other site 550542000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 550542000011 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 550542000012 putative DNA binding surface [nucleotide binding]; other site 550542000013 dimer interface [polypeptide binding]; other site 550542000014 beta-clamp/clamp loader binding surface; other site 550542000015 beta-clamp/translesion DNA polymerase binding surface; other site 550542000016 DDE superfamily endonuclease; Region: DDE_5; cl17874 550542000017 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542000018 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 550542000019 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 550542000020 recombination protein F; Reviewed; Region: recF; PRK00064 550542000021 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 550542000022 Walker A/P-loop; other site 550542000023 ATP binding site [chemical binding]; other site 550542000024 Q-loop/lid; other site 550542000025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550542000026 ABC transporter signature motif; other site 550542000027 Walker B; other site 550542000028 D-loop; other site 550542000029 H-loop/switch region; other site 550542000030 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 550542000031 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 550542000032 Mg2+ binding site [ion binding]; other site 550542000033 G-X-G motif; other site 550542000034 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 550542000035 anchoring element; other site 550542000036 dimer interface [polypeptide binding]; other site 550542000037 ATP binding site [chemical binding]; other site 550542000038 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 550542000039 active site 550542000040 putative metal-binding site [ion binding]; other site 550542000041 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 550542000042 DNA gyrase subunit A; Validated; Region: PRK05560 550542000043 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 550542000044 CAP-like domain; other site 550542000045 active site 550542000046 primary dimer interface [polypeptide binding]; other site 550542000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550542000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550542000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550542000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550542000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550542000052 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550542000053 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 550542000054 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550542000055 Zn2+ binding site [ion binding]; other site 550542000056 Mg2+ binding site [ion binding]; other site 550542000057 YaaC-like Protein; Region: YaaC; pfam14175 550542000058 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 550542000059 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 550542000060 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 550542000061 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 550542000062 active site 550542000063 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 550542000064 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 550542000065 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 550542000066 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 550542000067 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 550542000068 active site 550542000069 multimer interface [polypeptide binding]; other site 550542000070 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 550542000071 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 550542000072 predicted active site [active] 550542000073 catalytic triad [active] 550542000074 seryl-tRNA synthetase; Provisional; Region: PRK05431 550542000075 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 550542000076 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 550542000077 dimer interface [polypeptide binding]; other site 550542000078 active site 550542000079 motif 1; other site 550542000080 motif 2; other site 550542000081 motif 3; other site 550542000082 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 550542000083 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542000084 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542000085 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 550542000086 active site 550542000087 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 550542000088 nucleoside/Zn binding site; other site 550542000089 dimer interface [polypeptide binding]; other site 550542000090 catalytic motif [active] 550542000091 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 550542000092 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 550542000093 Walker A motif; other site 550542000094 ATP binding site [chemical binding]; other site 550542000095 Walker B motif; other site 550542000096 arginine finger; other site 550542000097 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 550542000098 hypothetical protein; Validated; Region: PRK00153 550542000099 recombination protein RecR; Reviewed; Region: recR; PRK00076 550542000100 RecR protein; Region: RecR; pfam02132 550542000101 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 550542000102 putative active site [active] 550542000103 putative metal-binding site [ion binding]; other site 550542000104 tetramer interface [polypeptide binding]; other site 550542000105 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 550542000106 pro-sigmaK processing inhibitor BofA; Region: spore_BofA; TIGR02862 550542000107 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 550542000108 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 550542000109 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 550542000110 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550542000111 catalytic residue [active] 550542000112 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 550542000113 thymidylate kinase; Validated; Region: tmk; PRK00698 550542000114 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 550542000115 TMP-binding site; other site 550542000116 ATP-binding site [chemical binding]; other site 550542000117 DNA polymerase III subunit delta'; Validated; Region: PRK08058 550542000118 DNA polymerase III subunit delta'; Validated; Region: PRK08485 550542000119 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 550542000120 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 550542000121 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 550542000122 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 550542000123 S-adenosylmethionine binding site [chemical binding]; other site 550542000124 Predicted methyltransferases [General function prediction only]; Region: COG0313 550542000125 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 550542000126 putative SAM binding site [chemical binding]; other site 550542000127 putative homodimer interface [polypeptide binding]; other site 550542000128 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 550542000129 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 550542000130 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 550542000131 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 550542000132 active site 550542000133 HIGH motif; other site 550542000134 KMSKS motif; other site 550542000135 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 550542000136 tRNA binding surface [nucleotide binding]; other site 550542000137 anticodon binding site; other site 550542000138 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 550542000139 dimer interface [polypeptide binding]; other site 550542000140 putative tRNA-binding site [nucleotide binding]; other site 550542000141 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 550542000142 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 550542000143 active site 550542000144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 550542000145 Domain of unknown function (DUF348); Region: DUF348; pfam03990 550542000146 Domain of unknown function (DUF348); Region: DUF348; pfam03990 550542000147 Domain of unknown function (DUF348); Region: DUF348; pfam03990 550542000148 G5 domain; Region: G5; pfam07501 550542000149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 550542000150 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 550542000151 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 550542000152 putative active site [active] 550542000153 putative metal binding site [ion binding]; other site 550542000154 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 550542000155 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 550542000156 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 550542000157 S-adenosylmethionine binding site [chemical binding]; other site 550542000158 sporulation peptidase YabG; Region: spore_yabG; TIGR02855 550542000159 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 550542000160 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 550542000161 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 550542000162 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 550542000163 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 550542000164 pur operon repressor; Provisional; Region: PRK09213 550542000165 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 550542000166 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550542000167 active site 550542000168 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 550542000169 homotrimer interaction site [polypeptide binding]; other site 550542000170 putative active site [active] 550542000171 regulatory protein SpoVG; Reviewed; Region: PRK13259 550542000172 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 550542000173 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 550542000174 Substrate binding site; other site 550542000175 Mg++ binding site; other site 550542000176 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 550542000177 active site 550542000178 substrate binding site [chemical binding]; other site 550542000179 CoA binding site [chemical binding]; other site 550542000180 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 550542000181 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 550542000182 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550542000183 active site 550542000184 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 550542000185 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 550542000186 5S rRNA interface [nucleotide binding]; other site 550542000187 CTC domain interface [polypeptide binding]; other site 550542000188 L16 interface [polypeptide binding]; other site 550542000189 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 550542000190 putative active site [active] 550542000191 catalytic residue [active] 550542000192 Protein of unknown function (DUF2757); Region: DUF2757; pfam10955 550542000193 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 550542000194 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 550542000195 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 550542000196 ATP binding site [chemical binding]; other site 550542000197 putative Mg++ binding site [ion binding]; other site 550542000198 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 550542000199 nucleotide binding region [chemical binding]; other site 550542000200 ATP-binding site [chemical binding]; other site 550542000201 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 550542000202 stage V sporulation protein T; Region: spore_V_T; TIGR02851 550542000203 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 550542000204 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 550542000205 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 550542000206 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 550542000207 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 550542000208 putative SAM binding site [chemical binding]; other site 550542000209 putative homodimer interface [polypeptide binding]; other site 550542000210 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 550542000211 homodimer interface [polypeptide binding]; other site 550542000212 metal binding site [ion binding]; metal-binding site 550542000213 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 550542000214 homodimer interface [polypeptide binding]; other site 550542000215 active site 550542000216 putative chemical substrate binding site [chemical binding]; other site 550542000217 metal binding site [ion binding]; metal-binding site 550542000218 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 550542000219 RNA binding surface [nucleotide binding]; other site 550542000220 sporulation protein YabP; Region: spore_yabP; TIGR02892 550542000221 spore cortex biosynthesis protein YabQ; Region: spore_yabQ; TIGR02893 550542000222 Septum formation initiator; Region: DivIC; pfam04977 550542000223 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 550542000224 hypothetical protein; Provisional; Region: PRK08582 550542000225 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 550542000226 RNA binding site [nucleotide binding]; other site 550542000227 stage II sporulation protein E; Region: spore_II_E; TIGR02865 550542000228 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 550542000229 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 550542000230 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 550542000231 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 550542000232 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 550542000233 metal ion-dependent adhesion site (MIDAS); other site 550542000234 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 550542000235 Catalytic domain of Protein Kinases; Region: PKc; cd00180 550542000236 active site 550542000237 ATP binding site [chemical binding]; other site 550542000238 substrate binding site [chemical binding]; other site 550542000239 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 550542000240 active site 550542000241 ATP binding site [chemical binding]; other site 550542000242 substrate binding site [chemical binding]; other site 550542000243 activation loop (A-loop); other site 550542000244 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 550542000245 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 550542000246 Ligand Binding Site [chemical binding]; other site 550542000247 TilS substrate C-terminal domain; Region: TilS_C; smart00977 550542000248 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550542000249 active site 550542000250 FtsH Extracellular; Region: FtsH_ext; pfam06480 550542000251 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 550542000252 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 550542000253 Walker A motif; other site 550542000254 ATP binding site [chemical binding]; other site 550542000255 Walker B motif; other site 550542000256 arginine finger; other site 550542000257 Peptidase family M41; Region: Peptidase_M41; pfam01434 550542000258 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 550542000259 nucleotide binding site [chemical binding]; other site 550542000260 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 550542000261 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 550542000262 dimerization interface [polypeptide binding]; other site 550542000263 domain crossover interface; other site 550542000264 redox-dependent activation switch; other site 550542000265 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 550542000266 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 550542000267 dimer interface [polypeptide binding]; other site 550542000268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542000269 catalytic residue [active] 550542000270 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 550542000271 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 550542000272 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 550542000273 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 550542000274 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 550542000275 glutamine binding [chemical binding]; other site 550542000276 catalytic triad [active] 550542000277 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 550542000278 4-amino-4-deoxychorismate lyase; Provisional; Region: PRK07650 550542000279 homodimer interface [polypeptide binding]; other site 550542000280 substrate-cofactor binding pocket; other site 550542000281 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542000282 catalytic residue [active] 550542000283 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 550542000284 dihydropteroate synthase; Region: DHPS; TIGR01496 550542000285 substrate binding pocket [chemical binding]; other site 550542000286 dimer interface [polypeptide binding]; other site 550542000287 inhibitor binding site; inhibition site 550542000288 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 550542000289 homooctamer interface [polypeptide binding]; other site 550542000290 active site 550542000291 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 550542000292 catalytic center binding site [active] 550542000293 ATP binding site [chemical binding]; other site 550542000294 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 550542000295 non-specific DNA binding site [nucleotide binding]; other site 550542000296 salt bridge; other site 550542000297 sequence-specific DNA binding site [nucleotide binding]; other site 550542000298 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542000299 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542000300 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542000301 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542000302 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 550542000303 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 550542000304 FMN binding site [chemical binding]; other site 550542000305 active site 550542000306 catalytic residues [active] 550542000307 substrate binding site [chemical binding]; other site 550542000308 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 550542000309 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 550542000310 dimer interface [polypeptide binding]; other site 550542000311 putative anticodon binding site; other site 550542000312 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 550542000313 motif 1; other site 550542000314 active site 550542000315 motif 2; other site 550542000316 motif 3; other site 550542000317 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 550542000318 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 550542000319 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 550542000320 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 550542000321 ADP binding site [chemical binding]; other site 550542000322 phosphagen binding site; other site 550542000323 substrate specificity loop; other site 550542000324 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 550542000325 Clp amino terminal domain; Region: Clp_N; pfam02861 550542000326 Clp amino terminal domain; Region: Clp_N; pfam02861 550542000327 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 550542000328 Walker A motif; other site 550542000329 ATP binding site [chemical binding]; other site 550542000330 Walker B motif; other site 550542000331 arginine finger; other site 550542000332 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 550542000333 Walker A motif; other site 550542000334 ATP binding site [chemical binding]; other site 550542000335 Walker B motif; other site 550542000336 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 550542000337 DNA repair protein RadA; Provisional; Region: PRK11823 550542000338 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 550542000339 Walker A motif/ATP binding site; other site 550542000340 ATP binding site [chemical binding]; other site 550542000341 Walker B motif; other site 550542000342 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 550542000343 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 550542000344 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 550542000345 putative active site [active] 550542000346 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 550542000347 substrate binding site; other site 550542000348 dimer interface; other site 550542000349 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 550542000350 homotrimer interaction site [polypeptide binding]; other site 550542000351 zinc binding site [ion binding]; other site 550542000352 CDP-binding sites; other site 550542000353 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 550542000354 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 550542000355 HIGH motif; other site 550542000356 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 550542000357 active site 550542000358 KMSKS motif; other site 550542000359 serine O-acetyltransferase; Region: cysE; TIGR01172 550542000360 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 550542000361 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 550542000362 trimer interface [polypeptide binding]; other site 550542000363 active site 550542000364 substrate binding site [chemical binding]; other site 550542000365 CoA binding site [chemical binding]; other site 550542000366 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 550542000367 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 550542000368 active site 550542000369 HIGH motif; other site 550542000370 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 550542000371 KMSKS motif; other site 550542000372 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 550542000373 tRNA binding surface [nucleotide binding]; other site 550542000374 anticodon binding site; other site 550542000375 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 550542000376 active site 550542000377 metal binding site [ion binding]; metal-binding site 550542000378 dimerization interface [polypeptide binding]; other site 550542000379 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 550542000380 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 550542000381 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 550542000382 YacP-like NYN domain; Region: NYN_YacP; cl01491 550542000383 RNA polymerase factor sigma-70; Validated; Region: PRK08295 550542000384 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550542000385 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 550542000386 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 550542000387 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 550542000388 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 550542000389 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 550542000390 putative homodimer interface [polypeptide binding]; other site 550542000391 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 550542000392 heterodimer interface [polypeptide binding]; other site 550542000393 homodimer interface [polypeptide binding]; other site 550542000394 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 550542000395 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 550542000396 23S rRNA interface [nucleotide binding]; other site 550542000397 L7/L12 interface [polypeptide binding]; other site 550542000398 putative thiostrepton binding site; other site 550542000399 L25 interface [polypeptide binding]; other site 550542000400 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 550542000401 mRNA/rRNA interface [nucleotide binding]; other site 550542000402 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 550542000403 23S rRNA interface [nucleotide binding]; other site 550542000404 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 550542000405 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 550542000406 core dimer interface [polypeptide binding]; other site 550542000407 peripheral dimer interface [polypeptide binding]; other site 550542000408 L10 interface [polypeptide binding]; other site 550542000409 L11 interface [polypeptide binding]; other site 550542000410 putative EF-Tu interaction site [polypeptide binding]; other site 550542000411 putative EF-G interaction site [polypeptide binding]; other site 550542000412 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 550542000413 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 550542000414 S-adenosylmethionine binding site [chemical binding]; other site 550542000415 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 550542000416 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 550542000417 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 550542000418 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 550542000419 RPB1 interaction site [polypeptide binding]; other site 550542000420 RPB10 interaction site [polypeptide binding]; other site 550542000421 RPB11 interaction site [polypeptide binding]; other site 550542000422 RPB3 interaction site [polypeptide binding]; other site 550542000423 RPB12 interaction site [polypeptide binding]; other site 550542000424 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 550542000425 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 550542000426 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 550542000427 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 550542000428 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 550542000429 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 550542000430 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 550542000431 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 550542000432 G-loop; other site 550542000433 DNA binding site [nucleotide binding] 550542000434 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 550542000435 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 550542000436 S17 interaction site [polypeptide binding]; other site 550542000437 S8 interaction site; other site 550542000438 16S rRNA interaction site [nucleotide binding]; other site 550542000439 streptomycin interaction site [chemical binding]; other site 550542000440 23S rRNA interaction site [nucleotide binding]; other site 550542000441 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 550542000442 30S ribosomal protein S7; Validated; Region: PRK05302 550542000443 elongation factor G; Reviewed; Region: PRK00007 550542000444 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 550542000445 G1 box; other site 550542000446 putative GEF interaction site [polypeptide binding]; other site 550542000447 GTP/Mg2+ binding site [chemical binding]; other site 550542000448 Switch I region; other site 550542000449 G2 box; other site 550542000450 G3 box; other site 550542000451 Switch II region; other site 550542000452 G4 box; other site 550542000453 G5 box; other site 550542000454 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 550542000455 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 550542000456 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 550542000457 elongation factor Tu; Reviewed; Region: PRK00049 550542000458 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 550542000459 G1 box; other site 550542000460 GEF interaction site [polypeptide binding]; other site 550542000461 GTP/Mg2+ binding site [chemical binding]; other site 550542000462 Switch I region; other site 550542000463 G2 box; other site 550542000464 G3 box; other site 550542000465 Switch II region; other site 550542000466 G4 box; other site 550542000467 G5 box; other site 550542000468 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 550542000469 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 550542000470 Antibiotic Binding Site [chemical binding]; other site 550542000471 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 550542000472 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 550542000473 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 550542000474 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 550542000475 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 550542000476 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 550542000477 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 550542000478 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 550542000479 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 550542000480 putative translocon binding site; other site 550542000481 protein-rRNA interface [nucleotide binding]; other site 550542000482 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 550542000483 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 550542000484 G-X-X-G motif; other site 550542000485 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 550542000486 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 550542000487 23S rRNA interface [nucleotide binding]; other site 550542000488 5S rRNA interface [nucleotide binding]; other site 550542000489 putative antibiotic binding site [chemical binding]; other site 550542000490 L25 interface [polypeptide binding]; other site 550542000491 L27 interface [polypeptide binding]; other site 550542000492 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 550542000493 23S rRNA interface [nucleotide binding]; other site 550542000494 putative translocon interaction site; other site 550542000495 signal recognition particle (SRP54) interaction site; other site 550542000496 L23 interface [polypeptide binding]; other site 550542000497 trigger factor interaction site; other site 550542000498 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 550542000499 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 550542000500 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 550542000501 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 550542000502 RNA binding site [nucleotide binding]; other site 550542000503 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 550542000504 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 550542000505 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 550542000506 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 550542000507 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 550542000508 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 550542000509 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 550542000510 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 550542000511 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 550542000512 5S rRNA interface [nucleotide binding]; other site 550542000513 L27 interface [polypeptide binding]; other site 550542000514 23S rRNA interface [nucleotide binding]; other site 550542000515 L5 interface [polypeptide binding]; other site 550542000516 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 550542000517 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 550542000518 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 550542000519 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 550542000520 23S rRNA binding site [nucleotide binding]; other site 550542000521 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 550542000522 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 550542000523 SecY translocase; Region: SecY; pfam00344 550542000524 adenylate kinase; Reviewed; Region: adk; PRK00279 550542000525 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 550542000526 AMP-binding site [chemical binding]; other site 550542000527 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 550542000528 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 550542000529 active site 550542000530 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 550542000531 rRNA binding site [nucleotide binding]; other site 550542000532 predicted 30S ribosome binding site; other site 550542000533 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 550542000534 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 550542000535 30S ribosomal protein S13; Region: bact_S13; TIGR03631 550542000536 30S ribosomal protein S11; Validated; Region: PRK05309 550542000537 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 550542000538 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 550542000539 alphaNTD - beta interaction site [polypeptide binding]; other site 550542000540 alphaNTD homodimer interface [polypeptide binding]; other site 550542000541 alphaNTD - beta' interaction site [polypeptide binding]; other site 550542000542 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 550542000543 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 550542000544 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 550542000545 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 550542000546 Walker A/P-loop; other site 550542000547 ATP binding site [chemical binding]; other site 550542000548 Q-loop/lid; other site 550542000549 ABC transporter signature motif; other site 550542000550 Walker B; other site 550542000551 D-loop; other site 550542000552 H-loop/switch region; other site 550542000553 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 550542000554 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 550542000555 Walker A/P-loop; other site 550542000556 ATP binding site [chemical binding]; other site 550542000557 Q-loop/lid; other site 550542000558 ABC transporter signature motif; other site 550542000559 Walker B; other site 550542000560 D-loop; other site 550542000561 H-loop/switch region; other site 550542000562 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 550542000563 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 550542000564 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 550542000565 dimerization interface 3.5A [polypeptide binding]; other site 550542000566 active site 550542000567 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 550542000568 23S rRNA interface [nucleotide binding]; other site 550542000569 L3 interface [polypeptide binding]; other site 550542000570 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 550542000571 Protein of unknown function (DUF2521); Region: DUF2521; pfam10730 550542000572 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 550542000573 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 550542000574 active site 550542000575 Domain of unknown function DUF59; Region: DUF59; cl00941 550542000576 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 550542000577 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 550542000578 Walker A motif; other site 550542000579 KinB-signalling pathway activation in sporulation; Region: KbaA; pfam14089 550542000580 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 550542000581 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 550542000582 Arginase family; Region: Arginase; cd09989 550542000583 agmatinase; Region: agmatinase; TIGR01230 550542000584 active site 550542000585 Mn binding site [ion binding]; other site 550542000586 oligomer interface [polypeptide binding]; other site 550542000587 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 550542000588 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550542000589 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 550542000590 DNA binding residues [nucleotide binding] 550542000591 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 550542000592 Putative zinc-finger; Region: zf-HC2; pfam13490 550542000593 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 550542000594 Uncharacterized conserved protein [Function unknown]; Region: COG1624 550542000595 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 550542000596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 550542000597 YbbR-like protein; Region: YbbR; pfam07949 550542000598 YbbR-like protein; Region: YbbR; pfam07949 550542000599 YbbR-like protein; Region: YbbR; pfam07949 550542000600 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 550542000601 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 550542000602 active site 550542000603 substrate binding site [chemical binding]; other site 550542000604 metal binding site [ion binding]; metal-binding site 550542000605 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 550542000606 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 550542000607 glutaminase active site [active] 550542000608 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 550542000609 dimer interface [polypeptide binding]; other site 550542000610 active site 550542000611 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 550542000612 dimer interface [polypeptide binding]; other site 550542000613 active site 550542000614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542000615 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542000616 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542000617 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542000618 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 550542000619 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 550542000620 salt bridge; other site 550542000621 non-specific DNA binding site [nucleotide binding]; other site 550542000622 sequence-specific DNA binding site [nucleotide binding]; other site 550542000623 Protein of unknown function (DUF817); Region: DUF817; pfam05675 550542000624 DinB superfamily; Region: DinB_2; pfam12867 550542000625 metal-dependent hydrolase; Provisional; Region: PRK13291 550542000626 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 550542000627 active site 550542000628 PAS fold; Region: PAS; pfam00989 550542000629 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 550542000630 putative active site [active] 550542000631 heme pocket [chemical binding]; other site 550542000632 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 550542000633 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 550542000634 Walker A motif; other site 550542000635 ATP binding site [chemical binding]; other site 550542000636 Walker B motif; other site 550542000637 arginine finger; other site 550542000638 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 550542000639 S-methylmethionine transporter; Provisional; Region: PRK11387 550542000640 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 550542000641 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 550542000642 Glutamate binding site [chemical binding]; other site 550542000643 homodimer interface [polypeptide binding]; other site 550542000644 NAD binding site [chemical binding]; other site 550542000645 catalytic residues [active] 550542000646 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 550542000647 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 550542000648 inhibitor-cofactor binding pocket; inhibition site 550542000649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542000650 catalytic residue [active] 550542000651 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 550542000652 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 550542000653 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 550542000654 NAD(P) binding site [chemical binding]; other site 550542000655 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 550542000656 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 550542000657 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 550542000658 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 550542000659 ABC-ATPase subunit interface; other site 550542000660 dimer interface [polypeptide binding]; other site 550542000661 putative PBP binding regions; other site 550542000662 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 550542000663 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 550542000664 ABC-ATPase subunit interface; other site 550542000665 dimer interface [polypeptide binding]; other site 550542000666 putative PBP binding regions; other site 550542000667 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 550542000668 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 550542000669 putative ligand binding residues [chemical binding]; other site 550542000670 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 550542000671 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 550542000672 Walker A/P-loop; other site 550542000673 ATP binding site [chemical binding]; other site 550542000674 Q-loop/lid; other site 550542000675 ABC transporter signature motif; other site 550542000676 Walker B; other site 550542000677 D-loop; other site 550542000678 H-loop/switch region; other site 550542000679 FOG: CBS domain [General function prediction only]; Region: COG0517 550542000680 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 550542000681 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 550542000682 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 550542000683 putative active site [active] 550542000684 heme pocket [chemical binding]; other site 550542000685 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 550542000686 Walker A motif; other site 550542000687 ATP binding site [chemical binding]; other site 550542000688 Walker B motif; other site 550542000689 arginine finger; other site 550542000690 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550542000691 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 550542000692 active site 550542000693 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 550542000694 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 550542000695 NAD(P) binding site [chemical binding]; other site 550542000696 catalytic residues [active] 550542000697 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 550542000698 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 550542000699 active site 550542000700 metal binding site [ion binding]; metal-binding site 550542000701 Predicted membrane protein [Function unknown]; Region: COG2259 550542000702 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 550542000703 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 550542000704 catalytic residues [active] 550542000705 DinB family; Region: DinB; cl17821 550542000706 DinB superfamily; Region: DinB_2; pfam12867 550542000707 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 550542000708 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 550542000709 active site 550542000710 phosphorylation site [posttranslational modification] 550542000711 intermolecular recognition site; other site 550542000712 dimerization interface [polypeptide binding]; other site 550542000713 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 550542000714 DNA binding residues [nucleotide binding] 550542000715 dimerization interface [polypeptide binding]; other site 550542000716 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 550542000717 Histidine kinase; Region: HisKA_3; pfam07730 550542000718 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 550542000719 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550542000720 Walker A/P-loop; other site 550542000721 ATP binding site [chemical binding]; other site 550542000722 Q-loop/lid; other site 550542000723 ABC transporter signature motif; other site 550542000724 Walker B; other site 550542000725 D-loop; other site 550542000726 H-loop/switch region; other site 550542000727 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 550542000728 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 550542000729 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 550542000730 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 550542000731 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 550542000732 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 550542000733 active site 550542000734 metal binding site [ion binding]; metal-binding site 550542000735 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 550542000736 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 550542000737 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 550542000738 active site 550542000739 catalytic triad [active] 550542000740 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 550542000741 Sulfatase; Region: Sulfatase; pfam00884 550542000742 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 550542000743 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 550542000744 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 550542000745 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 550542000746 Domain of unknown function DUF; Region: DUF204; pfam02659 550542000747 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 550542000748 SpoOM protein; Region: Spo0M; pfam07070 550542000749 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 550542000750 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 550542000751 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 550542000752 nucleotide binding site [chemical binding]; other site 550542000753 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 550542000754 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 550542000755 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542000756 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 550542000757 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 550542000758 active site 550542000759 homodimer interface [polypeptide binding]; other site 550542000760 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 550542000761 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 550542000762 NodB motif; other site 550542000763 putative active site [active] 550542000764 putative catalytic site [active] 550542000765 putative Zn binding site [ion binding]; other site 550542000766 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 550542000767 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 550542000768 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 550542000769 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 550542000770 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 550542000771 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 550542000772 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 550542000773 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 550542000774 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 550542000775 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 550542000776 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 550542000777 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 550542000778 Esterase/lipase [General function prediction only]; Region: COG1647 550542000779 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 550542000780 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 550542000781 ATP binding site [chemical binding]; other site 550542000782 Mg++ binding site [ion binding]; other site 550542000783 motif III; other site 550542000784 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 550542000785 nucleotide binding region [chemical binding]; other site 550542000786 ATP-binding site [chemical binding]; other site 550542000787 Rhomboid family; Region: Rhomboid; pfam01694 550542000788 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 550542000789 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 550542000790 alanine racemase; Reviewed; Region: alr; PRK00053 550542000791 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 550542000792 active site 550542000793 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 550542000794 dimer interface [polypeptide binding]; other site 550542000795 substrate binding site [chemical binding]; other site 550542000796 catalytic residues [active] 550542000797 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 550542000798 PemK-like protein; Region: PemK; pfam02452 550542000799 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 550542000800 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 550542000801 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 550542000802 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 550542000803 RNA binding site [nucleotide binding]; other site 550542000804 SprT homologues; Region: SprT; cl01182 550542000805 hypothetical protein; Provisional; Region: PRK04351 550542000806 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 550542000807 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 550542000808 Glycoprotease family; Region: Peptidase_M22; pfam00814 550542000809 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 550542000810 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550542000811 Coenzyme A binding pocket [chemical binding]; other site 550542000812 UGMP family protein; Validated; Region: PRK09604 550542000813 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 550542000814 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 550542000815 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 550542000816 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 550542000817 ABC transporter; Region: ABC_tran_2; pfam12848 550542000818 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 550542000819 ABC transporter; Region: ABC_tran_2; pfam12848 550542000820 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 550542000821 trimer interface [polypeptide binding]; other site 550542000822 dimer interface [polypeptide binding]; other site 550542000823 putative active site [active] 550542000824 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 550542000825 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 550542000826 CoA binding domain; Region: CoA_binding; pfam02629 550542000827 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 550542000828 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 550542000829 Domain of unknown function (DUF4305); Region: DUF4305; pfam14146 550542000830 CAAX protease self-immunity; Region: Abi; pfam02517 550542000831 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 550542000832 oligomerisation interface [polypeptide binding]; other site 550542000833 mobile loop; other site 550542000834 roof hairpin; other site 550542000835 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 550542000836 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 550542000837 ring oligomerisation interface [polypeptide binding]; other site 550542000838 ATP/Mg binding site [chemical binding]; other site 550542000839 stacking interactions; other site 550542000840 hinge regions; other site 550542000841 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542000842 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542000843 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542000844 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 550542000845 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542000846 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 550542000847 GMP synthase; Reviewed; Region: guaA; PRK00074 550542000848 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 550542000849 AMP/PPi binding site [chemical binding]; other site 550542000850 candidate oxyanion hole; other site 550542000851 catalytic triad [active] 550542000852 potential glutamine specificity residues [chemical binding]; other site 550542000853 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 550542000854 ATP Binding subdomain [chemical binding]; other site 550542000855 Ligand Binding sites [chemical binding]; other site 550542000856 Dimerization subdomain; other site 550542000857 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 550542000858 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 550542000859 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 550542000860 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 550542000861 Protein of unknown function DUF58; Region: DUF58; pfam01882 550542000862 MoxR-like ATPases [General function prediction only]; Region: COG0714 550542000863 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 550542000864 Walker A motif; other site 550542000865 ATP binding site [chemical binding]; other site 550542000866 Walker B motif; other site 550542000867 arginine finger; other site 550542000868 fumarate hydratase; Reviewed; Region: fumC; PRK00485 550542000869 Class II fumarases; Region: Fumarase_classII; cd01362 550542000870 active site 550542000871 tetramer interface [polypeptide binding]; other site 550542000872 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542000873 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542000874 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542000875 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542000876 Domain of unknown function (DUF4306); Region: DUF4306; pfam14154 550542000877 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 550542000878 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 550542000879 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 550542000880 putative dimer interface [polypeptide binding]; other site 550542000881 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 550542000882 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 550542000883 ATP-grasp domain; Region: ATP-grasp; pfam02222 550542000884 adenylosuccinate lyase; Provisional; Region: PRK07492 550542000885 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 550542000886 tetramer interface [polypeptide binding]; other site 550542000887 active site 550542000888 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 550542000889 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 550542000890 ATP binding site [chemical binding]; other site 550542000891 active site 550542000892 substrate binding site [chemical binding]; other site 550542000893 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 550542000894 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 550542000895 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 550542000896 putative active site [active] 550542000897 catalytic triad [active] 550542000898 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 550542000899 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 550542000900 dimerization interface [polypeptide binding]; other site 550542000901 ATP binding site [chemical binding]; other site 550542000902 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 550542000903 dimerization interface [polypeptide binding]; other site 550542000904 ATP binding site [chemical binding]; other site 550542000905 amidophosphoribosyltransferase; Provisional; Region: PRK07631 550542000906 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 550542000907 active site 550542000908 tetramer interface [polypeptide binding]; other site 550542000909 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550542000910 active site 550542000911 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 550542000912 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 550542000913 dimerization interface [polypeptide binding]; other site 550542000914 putative ATP binding site [chemical binding]; other site 550542000915 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 550542000916 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 550542000917 active site 550542000918 substrate binding site [chemical binding]; other site 550542000919 cosubstrate binding site; other site 550542000920 catalytic site [active] 550542000921 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 550542000922 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 550542000923 purine monophosphate binding site [chemical binding]; other site 550542000924 dimer interface [polypeptide binding]; other site 550542000925 putative catalytic residues [active] 550542000926 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 550542000927 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 550542000928 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 550542000929 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 550542000930 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 550542000931 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 550542000932 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 550542000933 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 550542000934 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 550542000935 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 550542000936 active site 550542000937 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 550542000938 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 550542000939 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4496 550542000940 PcrB family; Region: PcrB; pfam01884 550542000941 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 550542000942 substrate binding site [chemical binding]; other site 550542000943 putative active site [active] 550542000944 dimer interface [polypeptide binding]; other site 550542000945 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 550542000946 Part of AAA domain; Region: AAA_19; pfam13245 550542000947 AAA domain; Region: AAA_12; pfam13087 550542000948 Family description; Region: UvrD_C_2; pfam13538 550542000949 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 550542000950 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 550542000951 nucleotide binding pocket [chemical binding]; other site 550542000952 K-X-D-G motif; other site 550542000953 catalytic site [active] 550542000954 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 550542000955 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 550542000956 Helix-hairpin-helix motif; Region: HHH; pfam00633 550542000957 helix-hairpin-helix signature motif; other site 550542000958 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 550542000959 Dimer interface [polypeptide binding]; other site 550542000960 Protein involved in sex pheromone biosynthesis [General function prediction only]; Region: CamS; COG4851 550542000961 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 550542000962 putative dimer interface [polypeptide binding]; other site 550542000963 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 550542000964 putative dimer interface [polypeptide binding]; other site 550542000965 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 550542000966 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 550542000967 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 550542000968 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 550542000969 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 550542000970 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 550542000971 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 550542000972 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 550542000973 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 550542000974 GatB domain; Region: GatB_Yqey; pfam02637 550542000975 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08248 550542000976 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 550542000977 homodimer interface [polypeptide binding]; other site 550542000978 substrate-cofactor binding pocket; other site 550542000979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542000980 catalytic residue [active] 550542000981 lantibiotic, gallidermin/nisin family; Region: lantibio_gallid; TIGR03731 550542000982 DDE superfamily endonuclease; Region: DDE_5; cl17874 550542000983 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542000984 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 550542000985 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 550542000986 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 550542000987 Walker A/P-loop; other site 550542000988 ATP binding site [chemical binding]; other site 550542000989 Q-loop/lid; other site 550542000990 ABC transporter signature motif; other site 550542000991 Walker B; other site 550542000992 D-loop; other site 550542000993 H-loop/switch region; other site 550542000994 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550542000995 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 550542000996 active site 550542000997 phosphorylation site [posttranslational modification] 550542000998 intermolecular recognition site; other site 550542000999 dimerization interface [polypeptide binding]; other site 550542001000 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 550542001001 DNA binding site [nucleotide binding] 550542001002 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550542001003 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 550542001004 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 550542001005 dimer interface [polypeptide binding]; other site 550542001006 phosphorylation site [posttranslational modification] 550542001007 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 550542001008 ATP binding site [chemical binding]; other site 550542001009 Mg2+ binding site [ion binding]; other site 550542001010 G-X-G motif; other site 550542001011 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 550542001012 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 550542001013 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 550542001014 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 550542001015 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 550542001016 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 550542001017 Walker A/P-loop; other site 550542001018 ATP binding site [chemical binding]; other site 550542001019 Q-loop/lid; other site 550542001020 ABC transporter signature motif; other site 550542001021 Walker B; other site 550542001022 D-loop; other site 550542001023 H-loop/switch region; other site 550542001024 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 550542001025 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 550542001026 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 550542001027 dimer interface [polypeptide binding]; other site 550542001028 conserved gate region; other site 550542001029 putative PBP binding loops; other site 550542001030 ABC-ATPase subunit interface; other site 550542001031 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 550542001032 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 550542001033 Walker A/P-loop; other site 550542001034 ATP binding site [chemical binding]; other site 550542001035 Q-loop/lid; other site 550542001036 ABC transporter signature motif; other site 550542001037 Walker B; other site 550542001038 D-loop; other site 550542001039 H-loop/switch region; other site 550542001040 FOG: CBS domain [General function prediction only]; Region: COG0517 550542001041 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 550542001042 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 550542001043 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 550542001044 TIGR02677 family protein; Region: TIGR02677 550542001045 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 550542001046 TIGR02678 family protein; Region: TIGR02678 550542001047 TIGR02680 family protein; Region: TIGR02680 550542001048 P-loop containing region of AAA domain; Region: AAA_29; cl17516 550542001049 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 550542001050 TIGR02679 family protein; Region: TIGR02679 550542001051 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 550542001052 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 550542001053 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 550542001054 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 550542001055 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 550542001056 Family of unknown function (DUF694); Region: DUF694; pfam05107 550542001057 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 550542001058 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 550542001059 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 550542001060 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 550542001061 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 550542001062 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 550542001063 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 550542001064 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl01634 550542001065 CRISPR-associated (Cas) DxTHG family; Region: Cas_DxTHG; pfam09455 550542001066 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09732 550542001067 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl17439 550542001068 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 550542001069 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 550542001070 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 550542001071 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 550542001072 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 550542001073 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440 550542001074 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 550542001075 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 550542001076 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542001077 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 550542001078 homodimer interface [polypeptide binding]; other site 550542001079 homotetramer interface [polypeptide binding]; other site 550542001080 active site pocket [active] 550542001081 cleavage site 550542001082 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 550542001083 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 550542001084 putative active site [active] 550542001085 putative NTP binding site [chemical binding]; other site 550542001086 putative nucleic acid binding site [nucleotide binding]; other site 550542001087 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 550542001088 drug efflux system protein MdtG; Provisional; Region: PRK09874 550542001089 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 550542001090 putative substrate translocation pore; other site 550542001091 phage shock protein A; Region: phageshock_pspA; TIGR02977 550542001092 Predicted membrane protein [Function unknown]; Region: COG1511 550542001093 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 550542001094 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 550542001095 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 550542001096 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550542001097 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550542001098 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 550542001099 dimer interface [polypeptide binding]; other site 550542001100 phosphorylation site [posttranslational modification] 550542001101 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 550542001102 ATP binding site [chemical binding]; other site 550542001103 Mg2+ binding site [ion binding]; other site 550542001104 G-X-G motif; other site 550542001105 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550542001106 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 550542001107 active site 550542001108 phosphorylation site [posttranslational modification] 550542001109 intermolecular recognition site; other site 550542001110 dimerization interface [polypeptide binding]; other site 550542001111 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 550542001112 DNA binding site [nucleotide binding] 550542001113 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 550542001114 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 550542001115 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 550542001116 protein binding site [polypeptide binding]; other site 550542001117 Uncharacterized distant relative of cell wall-associated hydrolases [Function unknown]; Region: COG3863 550542001118 Protein of unknown function (DUF962); Region: DUF962; pfam06127 550542001119 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 550542001120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 550542001121 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 550542001122 putative lipid kinase; Reviewed; Region: PRK13337 550542001123 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 550542001124 TRAM domain; Region: TRAM; cl01282 550542001125 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 550542001126 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 550542001127 S-adenosylmethionine binding site [chemical binding]; other site 550542001128 PemK-like protein; Region: PemK; pfam02452 550542001129 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 550542001130 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 550542001131 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 550542001132 dimerization interface [polypeptide binding]; other site 550542001133 putative DNA binding site [nucleotide binding]; other site 550542001134 putative Zn2+ binding site [ion binding]; other site 550542001135 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 550542001136 putative hydrophobic ligand binding site [chemical binding]; other site 550542001137 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 550542001138 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 550542001139 S-adenosylmethionine binding site [chemical binding]; other site 550542001140 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 550542001141 SpoOM protein; Region: Spo0M; pfam07070 550542001142 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 550542001143 active site 550542001144 8-oxo-dGMP binding site [chemical binding]; other site 550542001145 nudix motif; other site 550542001146 metal binding site [ion binding]; metal-binding site 550542001147 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 550542001148 LabA_like proteins; Region: LabA_like; cd06167 550542001149 putative metal binding site [ion binding]; other site 550542001150 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 550542001151 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 550542001152 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 550542001153 active site 550542001154 Substrate binding site; other site 550542001155 Mg++ binding site; other site 550542001156 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 550542001157 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 550542001158 putative trimer interface [polypeptide binding]; other site 550542001159 putative CoA binding site [chemical binding]; other site 550542001160 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 550542001161 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 550542001162 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 550542001163 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 550542001164 active site 550542001165 substrate binding site [chemical binding]; other site 550542001166 metal binding site [ion binding]; metal-binding site 550542001167 Sensory domain found in PocR; Region: PocR; pfam10114 550542001168 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 550542001169 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 550542001170 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 550542001171 DNA binding residues [nucleotide binding] 550542001172 dimerization interface [polypeptide binding]; other site 550542001173 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 550542001174 anti sigma factor interaction site; other site 550542001175 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 550542001176 regulatory phosphorylation site [posttranslational modification]; other site 550542001177 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 550542001178 PAS fold; Region: PAS_3; pfam08447 550542001179 putative active site [active] 550542001180 heme pocket [chemical binding]; other site 550542001181 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 550542001182 PAS domain; Region: PAS_9; pfam13426 550542001183 putative active site [active] 550542001184 heme pocket [chemical binding]; other site 550542001185 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 550542001186 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 550542001187 RDD family; Region: RDD; pfam06271 550542001188 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 550542001189 dimerization interface [polypeptide binding]; other site 550542001190 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550542001191 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550542001192 dimer interface [polypeptide binding]; other site 550542001193 putative CheW interface [polypeptide binding]; other site 550542001194 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 550542001195 ThiC-associated domain; Region: ThiC-associated; pfam13667 550542001196 ThiC family; Region: ThiC; pfam01964 550542001197 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 550542001198 Probable transposase; Region: OrfB_IS605; pfam01385 550542001199 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 550542001200 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 550542001201 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 550542001202 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542001203 homodimer interface [polypeptide binding]; other site 550542001204 catalytic residue [active] 550542001205 thiamine pyrophosphate protein; Validated; Region: PRK08199 550542001206 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 550542001207 PYR/PP interface [polypeptide binding]; other site 550542001208 dimer interface [polypeptide binding]; other site 550542001209 TPP binding site [chemical binding]; other site 550542001210 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 550542001211 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 550542001212 TPP-binding site [chemical binding]; other site 550542001213 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 550542001214 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 550542001215 NAD(P) binding site [chemical binding]; other site 550542001216 catalytic residues [active] 550542001217 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550542001218 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 550542001219 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 550542001220 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550542001221 putative substrate translocation pore; other site 550542001222 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 550542001223 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 550542001224 DNA binding residues [nucleotide binding] 550542001225 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 550542001226 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 550542001227 catalytic loop [active] 550542001228 iron binding site [ion binding]; other site 550542001229 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 550542001230 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 550542001231 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 550542001232 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 550542001233 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 550542001234 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 550542001235 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 550542001236 Ligand binding site; other site 550542001237 metal-binding site 550542001238 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 550542001239 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 550542001240 XdhC Rossmann domain; Region: XdhC_C; pfam13478 550542001241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 550542001242 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 550542001243 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 550542001244 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 550542001245 hexamer interface [polypeptide binding]; other site 550542001246 RNA binding site [nucleotide binding]; other site 550542001247 Histidine-zinc binding site [chemical binding]; other site 550542001248 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 550542001249 active sites [active] 550542001250 tetramer interface [polypeptide binding]; other site 550542001251 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 550542001252 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 550542001253 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 550542001254 NAD binding site [chemical binding]; other site 550542001255 ligand binding site [chemical binding]; other site 550542001256 catalytic site [active] 550542001257 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 550542001258 Transposase; Region: DDE_Tnp_ISL3; pfam01610 550542001259 Class I aldolases; Region: Aldolase_Class_I; cl17187 550542001260 Uncharacterized conserved protein [Function unknown]; Region: COG1556 550542001261 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 550542001262 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 550542001263 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 550542001264 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 550542001265 Cysteine-rich domain; Region: CCG; pfam02754 550542001266 Cysteine-rich domain; Region: CCG; pfam02754 550542001267 Transcriptional regulators [Transcription]; Region: FadR; COG2186 550542001268 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550542001269 DNA-binding site [nucleotide binding]; DNA binding site 550542001270 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 550542001271 L-lactate permease; Region: Lactate_perm; cl00701 550542001272 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 550542001273 rod shape-determining protein MreB; Provisional; Region: PRK13930 550542001274 MreB and similar proteins; Region: MreB_like; cd10225 550542001275 nucleotide binding site [chemical binding]; other site 550542001276 Mg binding site [ion binding]; other site 550542001277 putative protofilament interaction site [polypeptide binding]; other site 550542001278 RodZ interaction site [polypeptide binding]; other site 550542001279 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 550542001280 NlpC/P60 family; Region: NLPC_P60; pfam00877 550542001281 PAS domain S-box; Region: sensory_box; TIGR00229 550542001282 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 550542001283 putative active site [active] 550542001284 heme pocket [chemical binding]; other site 550542001285 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550542001286 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550542001287 metal binding site [ion binding]; metal-binding site 550542001288 active site 550542001289 I-site; other site 550542001290 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 550542001291 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 550542001292 The Phox Homology domain, a phosphoinositide binding module; Region: PX_domain; cl02563 550542001293 phosphoinositide binding site [chemical binding]; other site 550542001294 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 550542001295 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 550542001296 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 550542001297 bacillithiol biosynthesis deacetylase BshB2; Region: thiol_BshB2; TIGR04000 550542001298 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 550542001299 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 550542001300 active site 550542001301 metal binding site [ion binding]; metal-binding site 550542001302 acylphosphatase; Provisional; Region: PRK14420 550542001303 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 550542001304 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 550542001305 putative active site [active] 550542001306 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 550542001307 putative active site [active] 550542001308 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 550542001309 active site 550542001310 SAM binding site [chemical binding]; other site 550542001311 homodimer interface [polypeptide binding]; other site 550542001312 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 550542001313 ligand-binding site [chemical binding]; other site 550542001314 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 550542001315 ATP-sulfurylase; Region: ATPS; cd00517 550542001316 active site 550542001317 HXXH motif; other site 550542001318 flexible loop; other site 550542001319 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 550542001320 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 550542001321 Active Sites [active] 550542001322 Protein of unknown function (DUF1128); Region: DUF1128; pfam06569 550542001323 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 550542001324 Low molecular weight phosphatase family; Region: LMWPc; cd00115 550542001325 active site 550542001326 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 550542001327 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 550542001328 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550542001329 putative substrate translocation pore; other site 550542001330 calcium/proton exchanger (cax); Region: cax; TIGR00378 550542001331 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 550542001332 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 550542001333 YfkD-like protein; Region: YfkD; pfam14167 550542001334 Radical SAM superfamily; Region: Radical_SAM; pfam04055 550542001335 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 550542001336 FeS/SAM binding site; other site 550542001337 YfkB-like domain; Region: YfkB; pfam08756 550542001338 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 550542001339 fumarate hydratase FumB; Provisional; Region: PRK15391 550542001340 Fumarase C-terminus; Region: Fumerase_C; pfam05683 550542001341 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 550542001342 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 550542001343 NodB motif; other site 550542001344 active site 550542001345 catalytic site [active] 550542001346 Cd binding site [ion binding]; other site 550542001347 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 550542001348 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 550542001349 minor groove reading motif; other site 550542001350 helix-hairpin-helix signature motif; other site 550542001351 substrate binding pocket [chemical binding]; other site 550542001352 active site 550542001353 TRAM domain; Region: TRAM; pfam01938 550542001354 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 550542001355 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 550542001356 S-adenosylmethionine binding site [chemical binding]; other site 550542001357 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550542001358 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 550542001359 SnoaL-like domain; Region: SnoaL_3; pfam13474 550542001360 phage shock protein A; Region: phageshock_pspA; TIGR02977 550542001361 Predicted membrane protein [Function unknown]; Region: COG4758 550542001362 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 550542001363 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550542001364 Histidine kinase; Region: HisKA_3; pfam07730 550542001365 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 550542001366 ATP binding site [chemical binding]; other site 550542001367 Mg2+ binding site [ion binding]; other site 550542001368 G-X-G motif; other site 550542001369 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 550542001370 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 550542001371 active site 550542001372 phosphorylation site [posttranslational modification] 550542001373 intermolecular recognition site; other site 550542001374 dimerization interface [polypeptide binding]; other site 550542001375 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 550542001376 DNA binding residues [nucleotide binding] 550542001377 dimerization interface [polypeptide binding]; other site 550542001378 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 550542001379 Uncharacterized conserved protein [Function unknown]; Region: COG0397 550542001380 hypothetical protein; Validated; Region: PRK00029 550542001381 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 550542001382 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 550542001383 DNA binding residues [nucleotide binding] 550542001384 dimer interface [polypeptide binding]; other site 550542001385 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 550542001386 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 550542001387 PAS domain; Region: PAS_9; pfam13426 550542001388 putative active site [active] 550542001389 heme pocket [chemical binding]; other site 550542001390 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 550542001391 Uncharacterized conserved protein (DUF2294); Region: DUF2294; pfam10057 550542001392 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 550542001393 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 550542001394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 550542001395 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 550542001396 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 550542001397 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550542001398 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 550542001399 active site 550542001400 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 550542001401 CoA-transferase family III; Region: CoA_transf_3; pfam02515 550542001402 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 550542001403 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 550542001404 Ligand binding site; other site 550542001405 metal-binding site 550542001406 YfhD-like protein; Region: YfhD; pfam14151 550542001407 YfhE-like protein; Region: YfhE; pfam14152 550542001408 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 550542001409 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 550542001410 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 550542001411 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 550542001412 putative NAD(P) binding site [chemical binding]; other site 550542001413 putative active site [active] 550542001414 recombination regulator RecX; Provisional; Region: recX; PRK14135 550542001415 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 550542001416 YpzG-like protein; Region: YpzG; pfam14139 550542001417 acid-soluble spore protein K; Provisional; Region: sspK; PRK03081 550542001418 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 550542001419 Uncharacterized conserved protein [Function unknown]; Region: COG2427 550542001420 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 550542001421 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 550542001422 catalytic loop [active] 550542001423 iron binding site [ion binding]; other site 550542001424 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 550542001425 4Fe-4S binding domain; Region: Fer4; pfam00037 550542001426 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 550542001427 [4Fe-4S] binding site [ion binding]; other site 550542001428 molybdopterin cofactor binding site; other site 550542001429 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 550542001430 molybdopterin cofactor binding site; other site 550542001431 Uncharacterized conserved protein (DUF2294); Region: DUF2294; pfam10057 550542001432 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 550542001433 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 550542001434 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 550542001435 putative substrate translocation pore; other site 550542001436 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 550542001437 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 550542001438 minor groove reading motif; other site 550542001439 helix-hairpin-helix signature motif; other site 550542001440 substrate binding pocket [chemical binding]; other site 550542001441 active site 550542001442 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 550542001443 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 550542001444 DNA binding and oxoG recognition site [nucleotide binding] 550542001445 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 550542001446 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 550542001447 putative NAD(P) binding site [chemical binding]; other site 550542001448 active site 550542001449 YgaB-like protein; Region: YgaB; pfam14182 550542001450 hypothetical protein; Provisional; Region: PRK13662 550542001451 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 550542001452 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542001453 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 550542001454 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 550542001455 peptide binding site [polypeptide binding]; other site 550542001456 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 550542001457 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 550542001458 dimer interface [polypeptide binding]; other site 550542001459 conserved gate region; other site 550542001460 putative PBP binding loops; other site 550542001461 ABC-ATPase subunit interface; other site 550542001462 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 550542001463 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 550542001464 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 550542001465 dimer interface [polypeptide binding]; other site 550542001466 conserved gate region; other site 550542001467 ABC-ATPase subunit interface; other site 550542001468 Predicted membrane protein [Function unknown]; Region: COG4129 550542001469 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 550542001470 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 550542001471 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 550542001472 inhibitor-cofactor binding pocket; inhibition site 550542001473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542001474 catalytic residue [active] 550542001475 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 550542001476 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 550542001477 Walker A/P-loop; other site 550542001478 ATP binding site [chemical binding]; other site 550542001479 Q-loop/lid; other site 550542001480 ABC transporter signature motif; other site 550542001481 Walker B; other site 550542001482 D-loop; other site 550542001483 H-loop/switch region; other site 550542001484 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 550542001485 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 550542001486 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 550542001487 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 550542001488 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 550542001489 tetramer (dimer of dimers) interface [polypeptide binding]; other site 550542001490 NAD binding site [chemical binding]; other site 550542001491 dimer interface [polypeptide binding]; other site 550542001492 substrate binding site [chemical binding]; other site 550542001493 Ion channel; Region: Ion_trans_2; pfam07885 550542001494 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 550542001495 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 550542001496 catalytic triad [active] 550542001497 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 550542001498 metal binding site 2 [ion binding]; metal-binding site 550542001499 putative DNA binding helix; other site 550542001500 metal binding site 1 [ion binding]; metal-binding site 550542001501 dimer interface [polypeptide binding]; other site 550542001502 structural Zn2+ binding site [ion binding]; other site 550542001503 Protein of unknown function (DUF2614); Region: DUF2614; pfam11023 550542001504 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 550542001505 B3/4 domain; Region: B3_4; pfam03483 550542001506 epoxyqueuosine reductase; Region: TIGR00276 550542001507 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 550542001508 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; cd00020 550542001509 protein binding surface [polypeptide binding]; other site 550542001510 Putative amidase domain; Region: Amidase_6; pfam12671 550542001511 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 550542001512 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 550542001513 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 550542001514 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 550542001515 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 550542001516 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 550542001517 active site 550542001518 phosphorylation site [posttranslational modification] 550542001519 intermolecular recognition site; other site 550542001520 dimerization interface [polypeptide binding]; other site 550542001521 HTH domain; Region: HTH_11; pfam08279 550542001522 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 550542001523 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 550542001524 putative active site [active] 550542001525 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 550542001526 ATP binding site [chemical binding]; other site 550542001527 Mg2+ binding site [ion binding]; other site 550542001528 G-X-G motif; other site 550542001529 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 550542001530 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 550542001531 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 550542001532 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 550542001533 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 550542001534 active site 550542001535 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 550542001536 catalytic tetrad [active] 550542001537 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 550542001538 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 550542001539 Domain of unknown function DUF21; Region: DUF21; pfam01595 550542001540 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 550542001541 Transporter associated domain; Region: CorC_HlyC; smart01091 550542001542 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 550542001543 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 550542001544 active site 550542001545 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 550542001546 catalytic residues [active] 550542001547 putative disulfide oxidoreductase; Provisional; Region: PRK03113 550542001548 FOG: CBS domain [General function prediction only]; Region: COG0517 550542001549 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 550542001550 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 550542001551 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 550542001552 active site 550542001553 substrate binding site [chemical binding]; other site 550542001554 metal binding site [ion binding]; metal-binding site 550542001555 YhdB-like protein; Region: YhdB; pfam14148 550542001556 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 550542001557 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 550542001558 DDE superfamily endonuclease; Region: DDE_5; cl17874 550542001559 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542001560 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 550542001561 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 550542001562 SpoVR like protein; Region: SpoVR; pfam04293 550542001563 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 550542001564 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 550542001565 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 550542001566 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542001567 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 550542001568 carbon starvation protein A; Provisional; Region: PRK15015 550542001569 Carbon starvation protein CstA; Region: CstA; pfam02554 550542001570 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 550542001571 Protein of unknown function (DUF466); Region: DUF466; pfam04328 550542001572 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 550542001573 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 550542001574 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 550542001575 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 550542001576 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 550542001577 Ca binding site [ion binding]; other site 550542001578 active site 550542001579 catalytic site [active] 550542001580 metal-dependent hydrolase; Provisional; Region: PRK13291 550542001581 DinB superfamily; Region: DinB_2; pfam12867 550542001582 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 550542001583 putative transporter; Provisional; Region: PRK12382 550542001584 putative substrate translocation pore; other site 550542001585 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 550542001586 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 550542001587 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 550542001588 putative RNA binding site [nucleotide binding]; other site 550542001589 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 550542001590 S-adenosylmethionine binding site [chemical binding]; other site 550542001591 Putative transcription activator [Transcription]; Region: TenA; COG0819 550542001592 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 550542001593 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 550542001594 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 550542001595 Walker A/P-loop; other site 550542001596 ATP binding site [chemical binding]; other site 550542001597 Q-loop/lid; other site 550542001598 ABC transporter signature motif; other site 550542001599 Walker B; other site 550542001600 D-loop; other site 550542001601 H-loop/switch region; other site 550542001602 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 550542001603 Walker A/P-loop; other site 550542001604 ATP binding site [chemical binding]; other site 550542001605 Q-loop/lid; other site 550542001606 ABC transporter signature motif; other site 550542001607 Walker B; other site 550542001608 D-loop; other site 550542001609 H-loop/switch region; other site 550542001610 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 550542001611 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 550542001612 thiamine phosphate binding site [chemical binding]; other site 550542001613 active site 550542001614 pyrophosphate binding site [ion binding]; other site 550542001615 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 550542001616 hydroxyglutarate oxidase; Provisional; Region: PRK11728 550542001617 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 550542001618 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 550542001619 thiS-thiF/thiG interaction site; other site 550542001620 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 550542001621 ThiS interaction site; other site 550542001622 putative active site [active] 550542001623 tetramer interface [polypeptide binding]; other site 550542001624 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 550542001625 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 550542001626 ATP binding site [chemical binding]; other site 550542001627 substrate interface [chemical binding]; other site 550542001628 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 550542001629 Domain of unknown function DUF21; Region: DUF21; pfam01595 550542001630 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 550542001631 Transporter associated domain; Region: CorC_HlyC; smart01091 550542001632 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 550542001633 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 550542001634 putative active site [active] 550542001635 putative NTP binding site [chemical binding]; other site 550542001636 putative nucleic acid binding site [nucleotide binding]; other site 550542001637 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 550542001638 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 550542001639 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 550542001640 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 550542001641 Walker A/P-loop; other site 550542001642 ATP binding site [chemical binding]; other site 550542001643 Q-loop/lid; other site 550542001644 ABC transporter signature motif; other site 550542001645 Walker B; other site 550542001646 D-loop; other site 550542001647 H-loop/switch region; other site 550542001648 TOBE domain; Region: TOBE; pfam03459 550542001649 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 550542001650 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 550542001651 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 550542001652 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 550542001653 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 550542001654 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 550542001655 hypothetical protein; Provisional; Region: PRK13676 550542001656 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 550542001657 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 550542001658 active site 550542001659 motif I; other site 550542001660 motif II; other site 550542001661 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 550542001662 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 550542001663 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 550542001664 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 550542001665 Walker A/P-loop; other site 550542001666 ATP binding site [chemical binding]; other site 550542001667 Q-loop/lid; other site 550542001668 ABC transporter signature motif; other site 550542001669 Walker B; other site 550542001670 D-loop; other site 550542001671 H-loop/switch region; other site 550542001672 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 550542001673 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 550542001674 Walker A/P-loop; other site 550542001675 ATP binding site [chemical binding]; other site 550542001676 Q-loop/lid; other site 550542001677 ABC transporter signature motif; other site 550542001678 Walker B; other site 550542001679 D-loop; other site 550542001680 H-loop/switch region; other site 550542001681 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 550542001682 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 550542001683 FeS/SAM binding site; other site 550542001684 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 550542001685 Cys-rich peptide radical SAM maturase CcpM; Region: rSAM_ocin_clost; TIGR04068 550542001686 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 550542001687 FeS/SAM binding site; other site 550542001688 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 550542001689 Transposase; Region: DDE_Tnp_ISL3; pfam01610 550542001690 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 550542001691 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542001692 Transposase domain (DUF772); Region: DUF772; pfam05598 550542001693 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 550542001694 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 550542001695 FeS/SAM binding site; other site 550542001696 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 550542001697 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542001698 YhzD-like protein; Region: YhzD; pfam14120 550542001699 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 550542001700 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 550542001701 Walker A/P-loop; other site 550542001702 ATP binding site [chemical binding]; other site 550542001703 Q-loop/lid; other site 550542001704 ABC transporter signature motif; other site 550542001705 Walker B; other site 550542001706 D-loop; other site 550542001707 H-loop/switch region; other site 550542001708 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 550542001709 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 550542001710 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 550542001711 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 550542001712 generic binding surface II; other site 550542001713 generic binding surface I; other site 550542001714 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550542001715 Zn2+ binding site [ion binding]; other site 550542001716 Mg2+ binding site [ion binding]; other site 550542001717 Sporulation protein YhaL; Region: Spore_YhaL; pfam14147 550542001718 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 550542001719 homodimer interface [polypeptide binding]; other site 550542001720 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 550542001721 substrate-cofactor binding pocket; other site 550542001722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542001723 catalytic residue [active] 550542001724 transcriptional regulator Hpr; Provisional; Region: PRK13777 550542001725 MarR family; Region: MarR; pfam01047 550542001726 Protein of unknown function (DUF1878); Region: DUF1878; pfam08963 550542001727 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 550542001728 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 550542001729 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 550542001730 HIT family signature motif; other site 550542001731 catalytic residue [active] 550542001732 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 550542001733 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 550542001734 Walker A/P-loop; other site 550542001735 ATP binding site [chemical binding]; other site 550542001736 Q-loop/lid; other site 550542001737 ABC transporter signature motif; other site 550542001738 Walker B; other site 550542001739 D-loop; other site 550542001740 H-loop/switch region; other site 550542001741 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 550542001742 Citrate transporter; Region: CitMHS; pfam03600 550542001743 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 550542001744 substrate binding site [chemical binding]; other site 550542001745 active site 550542001746 ferrochelatase; Provisional; Region: PRK12435 550542001747 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 550542001748 C-terminal domain interface [polypeptide binding]; other site 550542001749 active site 550542001750 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 550542001751 active site 550542001752 N-terminal domain interface [polypeptide binding]; other site 550542001753 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 550542001754 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 550542001755 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550542001756 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550542001757 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 550542001758 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 550542001759 YhfH-like protein; Region: YhfH; pfam14149 550542001760 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 550542001761 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 550542001762 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 550542001763 acyl-activating enzyme (AAE) consensus motif; other site 550542001764 putative AMP binding site [chemical binding]; other site 550542001765 putative active site [active] 550542001766 putative CoA binding site [chemical binding]; other site 550542001767 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 550542001768 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 550542001769 zinc binding site [ion binding]; other site 550542001770 putative ligand binding site [chemical binding]; other site 550542001771 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550542001772 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 550542001773 TM-ABC transporter signature motif; other site 550542001774 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 550542001775 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550542001776 Walker A/P-loop; other site 550542001777 ATP binding site [chemical binding]; other site 550542001778 Q-loop/lid; other site 550542001779 ABC transporter signature motif; other site 550542001780 Walker B; other site 550542001781 D-loop; other site 550542001782 H-loop/switch region; other site 550542001783 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 550542001784 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 550542001785 homodimer interface [polypeptide binding]; other site 550542001786 substrate-cofactor binding pocket; other site 550542001787 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542001788 catalytic residue [active] 550542001789 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 550542001790 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 550542001791 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 550542001792 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 550542001793 Cu(I) binding site [ion binding]; other site 550542001794 isocitrate lyase; Provisional; Region: PRK15063 550542001795 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 550542001796 tetramer interface [polypeptide binding]; other site 550542001797 active site 550542001798 Mg2+/Mn2+ binding site [ion binding]; other site 550542001799 ComK protein; Region: ComK; pfam06338 550542001800 Uncharacterized conserved protein [Function unknown]; Region: COG0398 550542001801 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 550542001802 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 550542001803 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 550542001804 Catalytic site [active] 550542001805 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 550542001806 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 550542001807 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 550542001808 Part of AAA domain; Region: AAA_19; pfam13245 550542001809 Family description; Region: UvrD_C_2; pfam13538 550542001810 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 550542001811 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 550542001812 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 550542001813 active site 550542001814 metal binding site [ion binding]; metal-binding site 550542001815 DNA binding site [nucleotide binding] 550542001816 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 550542001817 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 550542001818 AAA domain; Region: AAA_23; pfam13476 550542001819 Walker A/P-loop; other site 550542001820 ATP binding site [chemical binding]; other site 550542001821 Q-loop/lid; other site 550542001822 ABC transporter signature motif; other site 550542001823 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 550542001824 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 550542001825 ABC transporter signature motif; other site 550542001826 Walker B; other site 550542001827 D-loop; other site 550542001828 H-loop/switch region; other site 550542001829 Probable transposase; Region: OrfB_IS605; pfam01385 550542001830 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 550542001831 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 550542001832 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 550542001833 Protein of unknown function (DUF2772); Region: DUF2772; pfam10970 550542001834 Spore germination protein GerPC; Region: GerPC; pfam10737 550542001835 Protein of unknown function (DUF2539); Region: DUF2539; pfam10803 550542001836 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 550542001837 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 550542001838 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 550542001839 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 550542001840 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 550542001841 acyl-activating enzyme (AAE) consensus motif; other site 550542001842 putative active site [active] 550542001843 AMP binding site [chemical binding]; other site 550542001844 putative CoA binding site [chemical binding]; other site 550542001845 Predicted membrane protein [Function unknown]; Region: COG2311 550542001846 Protein of unknown function (DUF418); Region: DUF418; cl12135 550542001847 Protein of unknown function (DUF418); Region: DUF418; pfam04235 550542001848 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 550542001849 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 550542001850 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 550542001851 hypothetical protein; Provisional; Region: PRK13673 550542001852 FIST N domain; Region: FIST; pfam08495 550542001853 FIST C domain; Region: FIST_C; pfam10442 550542001854 PAS domain S-box; Region: sensory_box; TIGR00229 550542001855 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 550542001856 putative active site [active] 550542001857 heme pocket [chemical binding]; other site 550542001858 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550542001859 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550542001860 metal binding site [ion binding]; metal-binding site 550542001861 active site 550542001862 I-site; other site 550542001863 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 550542001864 Protein of unknown function (DUF2777); Region: DUF2777; pfam10949 550542001865 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 550542001866 active site 550542001867 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 550542001868 dimer interface [polypeptide binding]; other site 550542001869 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 550542001870 Ligand Binding Site [chemical binding]; other site 550542001871 Molecular Tunnel; other site 550542001872 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 550542001873 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 550542001874 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 550542001875 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 550542001876 Probable transposase; Region: OrfB_IS605; pfam01385 550542001877 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 550542001878 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 550542001879 homodimer interface [polypeptide binding]; other site 550542001880 maltodextrin glucosidase; Provisional; Region: PRK10785 550542001881 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 550542001882 active site 550542001883 homodimer interface [polypeptide binding]; other site 550542001884 catalytic site [active] 550542001885 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 550542001886 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 550542001887 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 550542001888 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 550542001889 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 550542001890 dimer interface [polypeptide binding]; other site 550542001891 conserved gate region; other site 550542001892 putative PBP binding loops; other site 550542001893 ABC-ATPase subunit interface; other site 550542001894 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 550542001895 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 550542001896 dimer interface [polypeptide binding]; other site 550542001897 conserved gate region; other site 550542001898 putative PBP binding loops; other site 550542001899 ABC-ATPase subunit interface; other site 550542001900 trehalose synthase; Region: treS_nterm; TIGR02456 550542001901 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 550542001902 active site 550542001903 catalytic site [active] 550542001904 Transcriptional regulators [Transcription]; Region: PurR; COG1609 550542001905 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 550542001906 DNA binding site [nucleotide binding] 550542001907 domain linker motif; other site 550542001908 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 550542001909 putative dimerization interface [polypeptide binding]; other site 550542001910 putative ligand binding site [chemical binding]; other site 550542001911 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 550542001912 Bacterial transcriptional regulator; Region: IclR; pfam01614 550542001913 PAS domain; Region: PAS; smart00091 550542001914 putative active site [active] 550542001915 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 550542001916 Walker A motif; other site 550542001917 ATP binding site [chemical binding]; other site 550542001918 Walker B motif; other site 550542001919 arginine finger; other site 550542001920 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 550542001921 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 550542001922 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 550542001923 tetramer interface [polypeptide binding]; other site 550542001924 TPP-binding site [chemical binding]; other site 550542001925 heterodimer interface [polypeptide binding]; other site 550542001926 phosphorylation loop region [posttranslational modification] 550542001927 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 550542001928 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 550542001929 alpha subunit interface [polypeptide binding]; other site 550542001930 TPP binding site [chemical binding]; other site 550542001931 heterodimer interface [polypeptide binding]; other site 550542001932 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 550542001933 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 550542001934 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 550542001935 E3 interaction surface; other site 550542001936 lipoyl attachment site [posttranslational modification]; other site 550542001937 e3 binding domain; Region: E3_binding; pfam02817 550542001938 e3 binding domain; Region: E3_binding; pfam02817 550542001939 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 550542001940 short chain dehydrogenase; Provisional; Region: PRK06701 550542001941 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 550542001942 NAD binding site [chemical binding]; other site 550542001943 metal binding site [ion binding]; metal-binding site 550542001944 active site 550542001945 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 550542001946 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 550542001947 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 550542001948 putative active site [active] 550542001949 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 550542001950 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 550542001951 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 550542001952 substrate binding pocket [chemical binding]; other site 550542001953 dimer interface [polypeptide binding]; other site 550542001954 inhibitor binding site; inhibition site 550542001955 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 550542001956 B12 binding site [chemical binding]; other site 550542001957 cobalt ligand [ion binding]; other site 550542001958 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 550542001959 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 550542001960 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 550542001961 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 550542001962 FAD binding site [chemical binding]; other site 550542001963 Double zinc ribbon; Region: DZR; pfam12773 550542001964 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 550542001965 S-S bond formation pathway protein; Provisional; Region: PHA02947; cl17416 550542001966 Bacteriocin class IId cyclical uberolysin-like; Region: Bacteriocin_IId; pfam09221 550542001967 Integral membrane protein DUF95; Region: DUF95; pfam01944 550542001968 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 550542001969 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550542001970 Walker A/P-loop; other site 550542001971 ATP binding site [chemical binding]; other site 550542001972 Q-loop/lid; other site 550542001973 ABC transporter signature motif; other site 550542001974 Walker B; other site 550542001975 D-loop; other site 550542001976 H-loop/switch region; other site 550542001977 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 550542001978 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 550542001979 Walker A/P-loop; other site 550542001980 ATP binding site [chemical binding]; other site 550542001981 Q-loop/lid; other site 550542001982 ABC transporter signature motif; other site 550542001983 Walker B; other site 550542001984 D-loop; other site 550542001985 H-loop/switch region; other site 550542001986 TOBE domain; Region: TOBE_2; pfam08402 550542001987 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 550542001988 dimer interface [polypeptide binding]; other site 550542001989 conserved gate region; other site 550542001990 putative PBP binding loops; other site 550542001991 ABC-ATPase subunit interface; other site 550542001992 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 550542001993 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 550542001994 dimer interface [polypeptide binding]; other site 550542001995 conserved gate region; other site 550542001996 putative PBP binding loops; other site 550542001997 ABC-ATPase subunit interface; other site 550542001998 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 550542001999 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 550542002000 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 550542002001 DinB superfamily; Region: DinB_2; pfam12867 550542002002 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 550542002003 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 550542002004 Walker A/P-loop; other site 550542002005 ATP binding site [chemical binding]; other site 550542002006 Q-loop/lid; other site 550542002007 ABC transporter signature motif; other site 550542002008 Walker B; other site 550542002009 D-loop; other site 550542002010 H-loop/switch region; other site 550542002011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 550542002012 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 550542002013 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 550542002014 Fic family protein [Function unknown]; Region: COG3177 550542002015 Fic/DOC family; Region: Fic; pfam02661 550542002016 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 550542002017 EDD domain protein, DegV family; Region: DegV; TIGR00762 550542002018 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 550542002019 Protein of unknown function (DUF3813); Region: DUF3813; pfam12758 550542002020 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 550542002021 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 550542002022 active site 550542002023 motif I; other site 550542002024 motif II; other site 550542002025 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 550542002026 esterase; Provisional; Region: PRK10566 550542002027 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 550542002028 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 550542002029 dimerization interface [polypeptide binding]; other site 550542002030 putative DNA binding site [nucleotide binding]; other site 550542002031 putative Zn2+ binding site [ion binding]; other site 550542002032 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 550542002033 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 550542002034 metal-binding site [ion binding] 550542002035 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 550542002036 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 550542002037 motif II; other site 550542002038 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 550542002039 homodimer interaction site [polypeptide binding]; other site 550542002040 cofactor binding site; other site 550542002041 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 550542002042 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 550542002043 CPxP motif; other site 550542002044 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 550542002045 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 550542002046 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 550542002047 ligand binding site [chemical binding]; other site 550542002048 flexible hinge region; other site 550542002049 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 550542002050 non-specific DNA interactions [nucleotide binding]; other site 550542002051 DNA binding site [nucleotide binding] 550542002052 sequence specific DNA binding site [nucleotide binding]; other site 550542002053 putative cAMP binding site [chemical binding]; other site 550542002054 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 550542002055 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 550542002056 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 550542002057 D-pathway; other site 550542002058 Low-spin heme binding site [chemical binding]; other site 550542002059 Tht1-like nuclear fusion protein; Region: Tht1; pfam04163 550542002060 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542002061 DDE superfamily endonuclease; Region: DDE_5; cl17874 550542002062 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542002063 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 550542002064 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 550542002065 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 550542002066 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 550542002067 GTP binding site; other site 550542002068 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 550542002069 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 550542002070 active site 550542002071 phosphorylation site [posttranslational modification] 550542002072 intermolecular recognition site; other site 550542002073 dimerization interface [polypeptide binding]; other site 550542002074 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 550542002075 DNA binding residues [nucleotide binding] 550542002076 dimerization interface [polypeptide binding]; other site 550542002077 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 550542002078 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550542002079 Walker A/P-loop; other site 550542002080 ATP binding site [chemical binding]; other site 550542002081 Q-loop/lid; other site 550542002082 ABC transporter signature motif; other site 550542002083 Walker B; other site 550542002084 D-loop; other site 550542002085 H-loop/switch region; other site 550542002086 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550542002087 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 550542002088 Walker A/P-loop; other site 550542002089 ATP binding site [chemical binding]; other site 550542002090 Q-loop/lid; other site 550542002091 ABC transporter signature motif; other site 550542002092 Walker B; other site 550542002093 D-loop; other site 550542002094 H-loop/switch region; other site 550542002095 radical SAM protein, BA_1875 family; Region: sam_11; TIGR04053 550542002096 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 550542002097 FeS/SAM binding site; other site 550542002098 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 550542002099 Putative zinc-finger; Region: zf-HC2; pfam13490 550542002100 Anti-sigma-K factor rskA; Region: RskA; pfam10099 550542002101 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 550542002102 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550542002103 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 550542002104 DNA binding residues [nucleotide binding] 550542002105 Predicted membrane protein [Function unknown]; Region: COG1470 550542002106 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 550542002107 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 550542002108 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 550542002109 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 550542002110 Walker A/P-loop; other site 550542002111 ATP binding site [chemical binding]; other site 550542002112 Q-loop/lid; other site 550542002113 ABC transporter signature motif; other site 550542002114 Walker B; other site 550542002115 D-loop; other site 550542002116 H-loop/switch region; other site 550542002117 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 550542002118 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 550542002119 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 550542002120 ligand binding site [chemical binding]; other site 550542002121 flexible hinge region; other site 550542002122 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 550542002123 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 550542002124 putative PBP binding loops; other site 550542002125 dimer interface [polypeptide binding]; other site 550542002126 ABC-ATPase subunit interface; other site 550542002127 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 550542002128 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 550542002129 FeS/SAM binding site; other site 550542002130 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 550542002131 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 550542002132 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 550542002133 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 550542002134 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550542002135 dimer interface [polypeptide binding]; other site 550542002136 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 550542002137 putative CheW interface [polypeptide binding]; other site 550542002138 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 550542002139 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 550542002140 dimer interface [polypeptide binding]; other site 550542002141 putative functional site; other site 550542002142 putative MPT binding site; other site 550542002143 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 550542002144 Walker A motif; other site 550542002145 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 550542002146 MoaE homodimer interface [polypeptide binding]; other site 550542002147 MoaD interaction [polypeptide binding]; other site 550542002148 active site residues [active] 550542002149 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 550542002150 MoaE interaction surface [polypeptide binding]; other site 550542002151 MoeB interaction surface [polypeptide binding]; other site 550542002152 thiocarboxylated glycine; other site 550542002153 YwiC-like protein; Region: YwiC; pfam14256 550542002154 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 550542002155 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 550542002156 ligand binding site [chemical binding]; other site 550542002157 flexible hinge region; other site 550542002158 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 550542002159 putative switch regulator; other site 550542002160 non-specific DNA interactions [nucleotide binding]; other site 550542002161 DNA binding site [nucleotide binding] 550542002162 sequence specific DNA binding site [nucleotide binding]; other site 550542002163 putative cAMP binding site [chemical binding]; other site 550542002164 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 550542002165 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 550542002166 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 550542002167 heterotetramer interface [polypeptide binding]; other site 550542002168 active site pocket [active] 550542002169 cleavage site 550542002170 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 550542002171 nucleotide binding site [chemical binding]; other site 550542002172 N-acetyl-L-glutamate binding site [chemical binding]; other site 550542002173 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 550542002174 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 550542002175 inhibitor-cofactor binding pocket; inhibition site 550542002176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542002177 catalytic residue [active] 550542002178 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 550542002179 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 550542002180 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 550542002181 catalytic site [active] 550542002182 subunit interface [polypeptide binding]; other site 550542002183 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 550542002184 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 550542002185 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 550542002186 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 550542002187 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 550542002188 ATP-grasp domain; Region: ATP-grasp_4; cl17255 550542002189 ornithine carbamoyltransferase; Provisional; Region: PRK00779 550542002190 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 550542002191 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 550542002192 YjzC-like protein; Region: YjzC; pfam14168 550542002193 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 550542002194 Clp amino terminal domain; Region: Clp_N; pfam02861 550542002195 Clp amino terminal domain; Region: Clp_N; pfam02861 550542002196 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 550542002197 Walker A motif; other site 550542002198 ATP binding site [chemical binding]; other site 550542002199 Walker B motif; other site 550542002200 arginine finger; other site 550542002201 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 550542002202 Walker A motif; other site 550542002203 ATP binding site [chemical binding]; other site 550542002204 Walker B motif; other site 550542002205 arginine finger; other site 550542002206 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 550542002207 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 550542002208 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 550542002209 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 550542002210 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 550542002211 dimer interface [polypeptide binding]; other site 550542002212 active site 550542002213 CoA binding pocket [chemical binding]; other site 550542002214 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 550542002215 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 550542002216 dimer interface [polypeptide binding]; other site 550542002217 active site 550542002218 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; pfam10026 550542002219 Protein of unknown function (DUF3603); Region: DUF3603; pfam12227 550542002220 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 550542002221 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 550542002222 active site 550542002223 HIGH motif; other site 550542002224 dimer interface [polypeptide binding]; other site 550542002225 KMSKS motif; other site 550542002226 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 550542002227 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 550542002228 peptide binding site [polypeptide binding]; other site 550542002229 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 550542002230 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 550542002231 dimer interface [polypeptide binding]; other site 550542002232 conserved gate region; other site 550542002233 putative PBP binding loops; other site 550542002234 ABC-ATPase subunit interface; other site 550542002235 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 550542002236 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 550542002237 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 550542002238 dimer interface [polypeptide binding]; other site 550542002239 conserved gate region; other site 550542002240 putative PBP binding loops; other site 550542002241 ABC-ATPase subunit interface; other site 550542002242 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 550542002243 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 550542002244 Walker A/P-loop; other site 550542002245 ATP binding site [chemical binding]; other site 550542002246 Q-loop/lid; other site 550542002247 ABC transporter signature motif; other site 550542002248 Walker B; other site 550542002249 D-loop; other site 550542002250 H-loop/switch region; other site 550542002251 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 550542002252 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 550542002253 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 550542002254 Walker A/P-loop; other site 550542002255 ATP binding site [chemical binding]; other site 550542002256 Q-loop/lid; other site 550542002257 ABC transporter signature motif; other site 550542002258 Walker B; other site 550542002259 D-loop; other site 550542002260 H-loop/switch region; other site 550542002261 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 550542002262 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 550542002263 ArsC family; Region: ArsC; pfam03960 550542002264 putative catalytic residues [active] 550542002265 thiol/disulfide switch; other site 550542002266 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 550542002267 adaptor protein; Provisional; Region: PRK02315 550542002268 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 550542002269 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 550542002270 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 550542002271 putative active site [active] 550542002272 catalytic site [active] 550542002273 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 550542002274 putative active site [active] 550542002275 catalytic site [active] 550542002276 Competence protein CoiA-like family; Region: CoiA; cl11541 550542002277 oligoendopeptidase F; Region: pepF; TIGR00181 550542002278 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 550542002279 active site 550542002280 Zn binding site [ion binding]; other site 550542002281 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 550542002282 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 550542002283 catalytic residues [active] 550542002284 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 550542002285 apolar tunnel; other site 550542002286 heme binding site [chemical binding]; other site 550542002287 dimerization interface [polypeptide binding]; other site 550542002288 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 550542002289 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 550542002290 N-acetyl-D-glucosamine binding site [chemical binding]; other site 550542002291 catalytic residue [active] 550542002292 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 550542002293 putative active site [active] 550542002294 putative metal binding residues [ion binding]; other site 550542002295 signature motif; other site 550542002296 putative triphosphate binding site [ion binding]; other site 550542002297 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 550542002298 synthetase active site [active] 550542002299 NTP binding site [chemical binding]; other site 550542002300 metal binding site [ion binding]; metal-binding site 550542002301 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 550542002302 ATP-NAD kinase; Region: NAD_kinase; pfam01513 550542002303 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 550542002304 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 550542002305 active site 550542002306 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 550542002307 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 550542002308 active site 550542002309 metal binding site [ion binding]; metal-binding site 550542002310 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 550542002311 Probable transposase; Region: OrfB_IS605; pfam01385 550542002312 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 550542002313 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 550542002314 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 550542002315 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 550542002316 NAD binding site [chemical binding]; other site 550542002317 homotetramer interface [polypeptide binding]; other site 550542002318 homodimer interface [polypeptide binding]; other site 550542002319 substrate binding site [chemical binding]; other site 550542002320 active site 550542002321 Spore coat protein CotO; Region: Spore_coat_CotO; pfam14153 550542002322 Spore coat protein CotO; Region: Spore_coat_CotO; pfam14153 550542002323 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 550542002324 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 550542002325 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 550542002326 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 550542002327 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 550542002328 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 550542002329 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 550542002330 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550542002331 NAD(P) binding site [chemical binding]; other site 550542002332 active site 550542002333 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 550542002334 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 550542002335 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 550542002336 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 550542002337 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 550542002338 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 550542002339 putative ADP-binding pocket [chemical binding]; other site 550542002340 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 550542002341 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 550542002342 active site 550542002343 ATP binding site [chemical binding]; other site 550542002344 substrate binding site [chemical binding]; other site 550542002345 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 550542002346 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 550542002347 Bacteriophage holin; Region: Phage_holin_1; cl02344 550542002348 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 550542002349 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 550542002350 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 550542002351 stage V sporulation protein AD; Provisional; Region: PRK12404 550542002352 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 550542002353 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 550542002354 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 550542002355 Predicted membrane protein [Function unknown]; Region: COG2323 550542002356 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 550542002357 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 550542002358 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 550542002359 catalytic residues [active] 550542002360 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 550542002361 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 550542002362 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550542002363 Coenzyme A binding pocket [chemical binding]; other site 550542002364 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 550542002365 Putative esterase; Region: Esterase; pfam00756 550542002366 cystathionine gamma-synthase; Reviewed; Region: PRK08247 550542002367 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 550542002368 homodimer interface [polypeptide binding]; other site 550542002369 substrate-cofactor binding pocket; other site 550542002370 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542002371 catalytic residue [active] 550542002372 cystathionine beta-lyase; Provisional; Region: PRK08064 550542002373 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 550542002374 homodimer interface [polypeptide binding]; other site 550542002375 substrate-cofactor binding pocket; other site 550542002376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542002377 catalytic residue [active] 550542002378 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 550542002379 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550542002380 Zn2+ binding site [ion binding]; other site 550542002381 Mg2+ binding site [ion binding]; other site 550542002382 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542002383 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 550542002384 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 550542002385 AAA domain; Region: AAA_18; pfam13238 550542002386 active site 550542002387 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 550542002388 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 550542002389 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 550542002390 ATP binding site [chemical binding]; other site 550542002391 putative Mg++ binding site [ion binding]; other site 550542002392 HsdM N-terminal domain; Region: HsdM_N; pfam12161 550542002393 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 550542002394 Methyltransferase domain; Region: Methyltransf_26; pfam13659 550542002395 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 550542002396 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 550542002397 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 550542002398 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 550542002399 dimerization interface [polypeptide binding]; other site 550542002400 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550542002401 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550542002402 dimer interface [polypeptide binding]; other site 550542002403 putative CheW interface [polypeptide binding]; other site 550542002404 Predicted membrane protein [Function unknown]; Region: COG2261 550542002405 gp58-like protein; Region: Gp58; pfam07902 550542002406 Predicted membrane protein [Function unknown]; Region: COG2855 550542002407 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550542002408 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550542002409 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 550542002410 putative dimerization interface [polypeptide binding]; other site 550542002411 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 550542002412 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 550542002413 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 550542002414 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 550542002415 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 550542002416 Walker A motif; other site 550542002417 ATP binding site [chemical binding]; other site 550542002418 Walker B motif; other site 550542002419 arginine finger; other site 550542002420 DDE superfamily endonuclease; Region: DDE_5; cl17874 550542002421 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542002422 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 550542002423 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 550542002424 putative homodimer interface [polypeptide binding]; other site 550542002425 putative homotetramer interface [polypeptide binding]; other site 550542002426 putative allosteric switch controlling residues; other site 550542002427 putative metal binding site [ion binding]; other site 550542002428 putative homodimer-homodimer interface [polypeptide binding]; other site 550542002429 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 550542002430 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 550542002431 metal-binding site [ion binding] 550542002432 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 550542002433 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 550542002434 metal-binding site [ion binding] 550542002435 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 550542002436 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 550542002437 motif II; other site 550542002438 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 550542002439 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 550542002440 metal-binding site [ion binding] 550542002441 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 550542002442 active site 550542002443 NTP binding site [chemical binding]; other site 550542002444 metal binding triad [ion binding]; metal-binding site 550542002445 antibiotic binding site [chemical binding]; other site 550542002446 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 550542002447 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 550542002448 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 550542002449 putative active site [active] 550542002450 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 550542002451 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 550542002452 active site 550542002453 dimer interface [polypeptide binding]; other site 550542002454 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 550542002455 Ligand Binding Site [chemical binding]; other site 550542002456 Molecular Tunnel; other site 550542002457 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550542002458 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 550542002459 dimerization interface [polypeptide binding]; other site 550542002460 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 550542002461 dimer interface [polypeptide binding]; other site 550542002462 phosphorylation site [posttranslational modification] 550542002463 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 550542002464 ATP binding site [chemical binding]; other site 550542002465 Mg2+ binding site [ion binding]; other site 550542002466 G-X-G motif; other site 550542002467 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550542002468 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 550542002469 active site 550542002470 phosphorylation site [posttranslational modification] 550542002471 intermolecular recognition site; other site 550542002472 dimerization interface [polypeptide binding]; other site 550542002473 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 550542002474 DNA binding site [nucleotide binding] 550542002475 ABC-2 type transporter; Region: ABC2_membrane; cl17235 550542002476 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 550542002477 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550542002478 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 550542002479 Walker A/P-loop; other site 550542002480 ATP binding site [chemical binding]; other site 550542002481 Q-loop/lid; other site 550542002482 ABC transporter signature motif; other site 550542002483 Walker B; other site 550542002484 D-loop; other site 550542002485 H-loop/switch region; other site 550542002486 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 550542002487 Class I ribonucleotide reductase; Region: RNR_I; cd01679 550542002488 active site 550542002489 dimer interface [polypeptide binding]; other site 550542002490 catalytic residues [active] 550542002491 effector binding site; other site 550542002492 R2 peptide binding site; other site 550542002493 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 550542002494 dimer interface [polypeptide binding]; other site 550542002495 putative radical transfer pathway; other site 550542002496 diiron center [ion binding]; other site 550542002497 tyrosyl radical; other site 550542002498 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 550542002499 TPR motif; other site 550542002500 binding surface 550542002501 TPR repeat; Region: TPR_11; pfam13414 550542002502 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 550542002503 putative active site pocket [active] 550542002504 putative catalytic residue [active] 550542002505 dimerization interface [polypeptide binding]; other site 550542002506 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 550542002507 putative active site pocket [active] 550542002508 dimerization interface [polypeptide binding]; other site 550542002509 putative catalytic residue [active] 550542002510 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550542002511 Zn2+ binding site [ion binding]; other site 550542002512 Mg2+ binding site [ion binding]; other site 550542002513 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 550542002514 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 550542002515 catalytic loop [active] 550542002516 iron binding site [ion binding]; other site 550542002517 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 550542002518 metabolite-proton symporter; Region: 2A0106; TIGR00883 550542002519 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 550542002520 putative substrate translocation pore; other site 550542002521 ornithine cyclodeaminase; Validated; Region: PRK08618 550542002522 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 550542002523 NAD(P) binding site [chemical binding]; other site 550542002524 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 550542002525 FAD binding domain; Region: FAD_binding_4; pfam01565 550542002526 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 550542002527 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 550542002528 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 550542002529 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 550542002530 Uncharacterized conserved protein [Function unknown]; Region: COG2966 550542002531 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 550542002532 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 550542002533 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 550542002534 M20 Peptidase Aminoacylase 1 amhX_like subfamily; Region: M20_Acy1_amhX_like; cd08018 550542002535 amidohydrolase; Region: amidohydrolases; TIGR01891 550542002536 metal binding site [ion binding]; metal-binding site 550542002537 putative dimer interface [polypeptide binding]; other site 550542002538 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550542002539 Coenzyme A binding pocket [chemical binding]; other site 550542002540 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 550542002541 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 550542002542 active site 550542002543 octamer interface [polypeptide binding]; other site 550542002544 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 550542002545 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 550542002546 Na binding site [ion binding]; other site 550542002547 Protein of unknown function, DUF485; Region: DUF485; pfam04341 550542002548 amino acid transporter; Region: 2A0306; TIGR00909 550542002549 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 550542002550 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 550542002551 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 550542002552 Probable transposase; Region: OrfB_IS605; pfam01385 550542002553 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 550542002554 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 550542002555 Transcriptional regulators [Transcription]; Region: PurR; COG1609 550542002556 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 550542002557 DNA binding site [nucleotide binding] 550542002558 domain linker motif; other site 550542002559 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 550542002560 dimerization interface [polypeptide binding]; other site 550542002561 ligand binding site [chemical binding]; other site 550542002562 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 550542002563 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 550542002564 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 550542002565 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 550542002566 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 550542002567 dimer interface [polypeptide binding]; other site 550542002568 conserved gate region; other site 550542002569 putative PBP binding loops; other site 550542002570 ABC-ATPase subunit interface; other site 550542002571 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 550542002572 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 550542002573 dimer interface [polypeptide binding]; other site 550542002574 conserved gate region; other site 550542002575 putative PBP binding loops; other site 550542002576 ABC-ATPase subunit interface; other site 550542002577 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 550542002578 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550542002579 putative substrate translocation pore; other site 550542002580 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 550542002581 Radical SAM superfamily; Region: Radical_SAM; pfam04055 550542002582 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 550542002583 FeS/SAM binding site; other site 550542002584 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 550542002585 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 550542002586 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 550542002587 putative active site [active] 550542002588 heme pocket [chemical binding]; other site 550542002589 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 550542002590 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 550542002591 putative active site [active] 550542002592 heme pocket [chemical binding]; other site 550542002593 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 550542002594 putative active site [active] 550542002595 heme pocket [chemical binding]; other site 550542002596 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 550542002597 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 550542002598 putative active site [active] 550542002599 heme pocket [chemical binding]; other site 550542002600 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 550542002601 dimer interface [polypeptide binding]; other site 550542002602 phosphorylation site [posttranslational modification] 550542002603 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 550542002604 ATP binding site [chemical binding]; other site 550542002605 Mg2+ binding site [ion binding]; other site 550542002606 G-X-G motif; other site 550542002607 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 550542002608 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 550542002609 DNA binding site [nucleotide binding] 550542002610 active site 550542002611 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550542002612 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 550542002613 TM-ABC transporter signature motif; other site 550542002614 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 550542002615 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 550542002616 Walker A/P-loop; other site 550542002617 ATP binding site [chemical binding]; other site 550542002618 Q-loop/lid; other site 550542002619 ABC transporter signature motif; other site 550542002620 Walker B; other site 550542002621 D-loop; other site 550542002622 H-loop/switch region; other site 550542002623 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 550542002624 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 550542002625 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 550542002626 putative ligand binding site [chemical binding]; other site 550542002627 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 550542002628 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 550542002629 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 550542002630 Phosphotransferase enzyme family; Region: APH; pfam01636 550542002631 Predicted amidohydrolase [General function prediction only]; Region: COG0388 550542002632 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 550542002633 putative active site [active] 550542002634 catalytic triad [active] 550542002635 putative dimer interface [polypeptide binding]; other site 550542002636 transaminase; Reviewed; Region: PRK08068 550542002637 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 550542002638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542002639 homodimer interface [polypeptide binding]; other site 550542002640 catalytic residue [active] 550542002641 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 550542002642 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: RLP_DK-MTP-1-P-enolase; cd08209 550542002643 dimer interface [polypeptide binding]; other site 550542002644 active site 550542002645 catalytic residue [active] 550542002646 metal binding site [ion binding]; metal-binding site 550542002647 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 550542002648 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 550542002649 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 550542002650 motif II; other site 550542002651 methylthioribulose-1-phosphate dehydratase; Reviewed; Region: mtnB; PRK06754 550542002652 intersubunit interface [polypeptide binding]; other site 550542002653 active site 550542002654 Zn2+ binding site [ion binding]; other site 550542002655 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 550542002656 Cupin domain; Region: Cupin_2; cl17218 550542002657 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 550542002658 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 550542002659 MarR family; Region: MarR; pfam01047 550542002660 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 550542002661 Propanediol utilisation protein PduL; Region: PduL; pfam06130 550542002662 Propanediol utilisation protein PduL; Region: PduL; pfam06130 550542002663 short chain dehydrogenase; Provisional; Region: PRK08309 550542002664 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 550542002665 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 550542002666 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 550542002667 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 550542002668 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 550542002669 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 550542002670 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 550542002671 active site 550542002672 Zn binding site [ion binding]; other site 550542002673 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 550542002674 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550542002675 Coenzyme A binding pocket [chemical binding]; other site 550542002676 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 550542002677 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 550542002678 Walker A/P-loop; other site 550542002679 ATP binding site [chemical binding]; other site 550542002680 Q-loop/lid; other site 550542002681 ABC transporter signature motif; other site 550542002682 Walker B; other site 550542002683 D-loop; other site 550542002684 H-loop/switch region; other site 550542002685 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 550542002686 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 550542002687 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 550542002688 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550542002689 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550542002690 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 550542002691 active site 550542002692 NTP binding site [chemical binding]; other site 550542002693 metal binding triad [ion binding]; metal-binding site 550542002694 antibiotic binding site [chemical binding]; other site 550542002695 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 550542002696 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 550542002697 Walker A motif; other site 550542002698 ATP binding site [chemical binding]; other site 550542002699 Walker B motif; other site 550542002700 arginine finger; other site 550542002701 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 550542002702 Walker A motif; other site 550542002703 ATP binding site [chemical binding]; other site 550542002704 Walker B motif; other site 550542002705 arginine finger; other site 550542002706 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 550542002707 YtkA-like; Region: YtkA; pfam13115 550542002708 YtkA-like; Region: YtkA; pfam13115 550542002709 Uncharacterized membrane protein [Function unknown]; Region: COG3949 550542002710 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550542002711 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550542002712 dimer interface [polypeptide binding]; other site 550542002713 putative CheW interface [polypeptide binding]; other site 550542002714 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 550542002715 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 550542002716 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 550542002717 Spore germination protein; Region: Spore_permease; pfam03845 550542002718 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 550542002719 Ligand Binding Site [chemical binding]; other site 550542002720 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 550542002721 active site 550542002722 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 550542002723 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 550542002724 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 550542002725 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 550542002726 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 550542002727 NAD binding site [chemical binding]; other site 550542002728 active site 550542002729 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; pfam09953 550542002730 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 550542002731 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542002732 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 550542002733 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 550542002734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550542002735 NAD(P) binding site [chemical binding]; other site 550542002736 active site 550542002737 YueH-like protein; Region: YueH; pfam14166 550542002738 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 550542002739 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 550542002740 putative active site [active] 550542002741 heme pocket [chemical binding]; other site 550542002742 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 550542002743 dimer interface [polypeptide binding]; other site 550542002744 phosphorylation site [posttranslational modification] 550542002745 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 550542002746 ATP binding site [chemical binding]; other site 550542002747 Mg2+ binding site [ion binding]; other site 550542002748 G-X-G motif; other site 550542002749 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 550542002750 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 550542002751 transcriptional antiterminator BglG; Provisional; Region: PRK09772 550542002752 CAT RNA binding domain; Region: CAT_RBD; smart01061 550542002753 PRD domain; Region: PRD; pfam00874 550542002754 PRD domain; Region: PRD; pfam00874 550542002755 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 550542002756 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 550542002757 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 550542002758 active site turn [active] 550542002759 phosphorylation site [posttranslational modification] 550542002760 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 550542002761 HPr interaction site; other site 550542002762 glycerol kinase (GK) interaction site [polypeptide binding]; other site 550542002763 active site 550542002764 phosphorylation site [posttranslational modification] 550542002765 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 550542002766 dimerization domain swap beta strand [polypeptide binding]; other site 550542002767 regulatory protein interface [polypeptide binding]; other site 550542002768 active site 550542002769 regulatory phosphorylation site [posttranslational modification]; other site 550542002770 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 550542002771 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 550542002772 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 550542002773 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 550542002774 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 550542002775 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 550542002776 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550542002777 Coenzyme A binding pocket [chemical binding]; other site 550542002778 Cache domain; Region: Cache_1; pfam02743 550542002779 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 550542002780 dimerization interface [polypeptide binding]; other site 550542002781 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550542002782 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550542002783 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550542002784 dimer interface [polypeptide binding]; other site 550542002785 putative CheW interface [polypeptide binding]; other site 550542002786 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 550542002787 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 550542002788 TPP-binding site [chemical binding]; other site 550542002789 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 550542002790 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 550542002791 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 550542002792 E3 interaction surface; other site 550542002793 lipoyl attachment site [posttranslational modification]; other site 550542002794 e3 binding domain; Region: E3_binding; pfam02817 550542002795 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 550542002796 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 550542002797 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 550542002798 putative NAD(P) binding site [chemical binding]; other site 550542002799 putative active site [active] 550542002800 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 550542002801 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 550542002802 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550542002803 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 550542002804 FAD binding site [chemical binding]; other site 550542002805 substrate binding site [chemical binding]; other site 550542002806 catalytic base [active] 550542002807 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 550542002808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550542002809 NAD(P) binding site [chemical binding]; other site 550542002810 active site 550542002811 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 550542002812 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 550542002813 acyl-activating enzyme (AAE) consensus motif; other site 550542002814 putative AMP binding site [chemical binding]; other site 550542002815 putative active site [active] 550542002816 putative CoA binding site [chemical binding]; other site 550542002817 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550542002818 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550542002819 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 550542002820 Phosphotransferase enzyme family; Region: APH; pfam01636 550542002821 putative active site [active] 550542002822 putative substrate binding site [chemical binding]; other site 550542002823 ATP binding site [chemical binding]; other site 550542002824 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 550542002825 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 550542002826 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 550542002827 NAD(P) binding site [chemical binding]; other site 550542002828 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 550542002829 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542002830 aminotransferase A; Validated; Region: PRK07683 550542002831 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 550542002832 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542002833 homodimer interface [polypeptide binding]; other site 550542002834 catalytic residue [active] 550542002835 A short protein domain of unknown function; Region: IDEAL; smart00914 550542002836 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 550542002837 Uncharacterized bacterial subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u2; cd12831 550542002838 oligomer interface [polypeptide binding]; other site 550542002839 metal binding site [ion binding]; metal-binding site 550542002840 metal binding site [ion binding]; metal-binding site 550542002841 putative Cl binding site [ion binding]; other site 550542002842 aspartate ring; other site 550542002843 basic sphincter; other site 550542002844 hydrophobic gate; other site 550542002845 periplasmic entrance; other site 550542002846 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 550542002847 active site 550542002848 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550542002849 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550542002850 metal binding site [ion binding]; metal-binding site 550542002851 active site 550542002852 I-site; other site 550542002853 Response regulator receiver domain; Region: Response_reg; pfam00072 550542002854 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 550542002855 active site 550542002856 phosphorylation site [posttranslational modification] 550542002857 intermolecular recognition site; other site 550542002858 dimerization interface [polypeptide binding]; other site 550542002859 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 550542002860 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 550542002861 DXD motif; other site 550542002862 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 550542002863 YkyB-like protein; Region: YkyB; pfam14177 550542002864 phosphodiesterase YaeI; Provisional; Region: PRK11340 550542002865 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 550542002866 putative active site [active] 550542002867 putative metal binding site [ion binding]; other site 550542002868 short chain dehydrogenase; Provisional; Region: PRK07677 550542002869 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 550542002870 NAD(P) binding site [chemical binding]; other site 550542002871 substrate binding site [chemical binding]; other site 550542002872 homotetramer interface [polypeptide binding]; other site 550542002873 active site 550542002874 homodimer interface [polypeptide binding]; other site 550542002875 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 550542002876 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 550542002877 Antirepressor AbbA; Region: AbbA_antirepres; pfam14156 550542002878 FOG: CBS domain [General function prediction only]; Region: COG0517 550542002879 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 550542002880 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 550542002881 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 550542002882 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 550542002883 active site 550542002884 trimer interface [polypeptide binding]; other site 550542002885 substrate binding site [chemical binding]; other site 550542002886 CoA binding site [chemical binding]; other site 550542002887 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 550542002888 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 550542002889 metal binding site [ion binding]; metal-binding site 550542002890 putative dimer interface [polypeptide binding]; other site 550542002891 hypothetical protein; Provisional; Region: PRK03094 550542002892 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 550542002893 TrkA-N domain; Region: TrkA_N; pfam02254 550542002894 TrkA-C domain; Region: TrkA_C; pfam02080 550542002895 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 550542002896 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550542002897 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 550542002898 hypothetical protein; Provisional; Region: PRK13667 550542002899 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 550542002900 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 550542002901 active site 550542002902 motif I; other site 550542002903 motif II; other site 550542002904 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 550542002905 motif II; other site 550542002906 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 550542002907 active site 550542002908 catalytic residues [active] 550542002909 metal binding site [ion binding]; metal-binding site 550542002910 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 550542002911 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 550542002912 TPP-binding site [chemical binding]; other site 550542002913 tetramer interface [polypeptide binding]; other site 550542002914 heterodimer interface [polypeptide binding]; other site 550542002915 phosphorylation loop region [posttranslational modification] 550542002916 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 550542002917 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 550542002918 alpha subunit interface [polypeptide binding]; other site 550542002919 TPP binding site [chemical binding]; other site 550542002920 heterodimer interface [polypeptide binding]; other site 550542002921 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 550542002922 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 550542002923 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 550542002924 E3 interaction surface; other site 550542002925 lipoyl attachment site [posttranslational modification]; other site 550542002926 e3 binding domain; Region: E3_binding; pfam02817 550542002927 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 550542002928 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 550542002929 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550542002930 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 550542002931 Domain of unknown function (DUF1885); Region: DUF1885; pfam08968 550542002932 Domain of unknown function (DUF4182); Region: DUF4182; pfam13790 550542002933 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 550542002934 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 550542002935 homodimer interface [polypeptide binding]; other site 550542002936 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542002937 catalytic residue [active] 550542002938 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 550542002939 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 550542002940 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 550542002941 FMN binding site [chemical binding]; other site 550542002942 substrate binding site [chemical binding]; other site 550542002943 putative catalytic residue [active] 550542002944 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 550542002945 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 550542002946 active site 550542002947 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 550542002948 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 550542002949 G1 box; other site 550542002950 putative GEF interaction site [polypeptide binding]; other site 550542002951 GTP/Mg2+ binding site [chemical binding]; other site 550542002952 Switch I region; other site 550542002953 G2 box; other site 550542002954 G3 box; other site 550542002955 Switch II region; other site 550542002956 G4 box; other site 550542002957 G5 box; other site 550542002958 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 550542002959 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 550542002960 YlaH-like protein; Region: YlaH; pfam14036 550542002961 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; pfam09963 550542002962 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 550542002963 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 550542002964 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 550542002965 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 550542002966 putative active site [active] 550542002967 PhoH-like protein; Region: PhoH; pfam02562 550542002968 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 550542002969 hypothetical protein; Provisional; Region: PRK13666 550542002970 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 550542002971 pyruvate carboxylase; Reviewed; Region: PRK12999 550542002972 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 550542002973 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 550542002974 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 550542002975 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 550542002976 active site 550542002977 catalytic residues [active] 550542002978 metal binding site [ion binding]; metal-binding site 550542002979 homodimer binding site [polypeptide binding]; other site 550542002980 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 550542002981 carboxyltransferase (CT) interaction site; other site 550542002982 biotinylation site [posttranslational modification]; other site 550542002983 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 550542002984 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 550542002985 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 550542002986 UbiA prenyltransferase family; Region: UbiA; pfam01040 550542002987 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 550542002988 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 550542002989 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 550542002990 Cytochrome c; Region: Cytochrom_C; pfam00034 550542002991 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 550542002992 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 550542002993 D-pathway; other site 550542002994 Putative ubiquinol binding site [chemical binding]; other site 550542002995 Low-spin heme (heme b) binding site [chemical binding]; other site 550542002996 Putative water exit pathway; other site 550542002997 Binuclear center (heme o3/CuB) [ion binding]; other site 550542002998 K-pathway; other site 550542002999 Putative proton exit pathway; other site 550542003000 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 550542003001 Subunit I/III interface [polypeptide binding]; other site 550542003002 Subunit III/IV interface [polypeptide binding]; other site 550542003003 cytochrome c oxidase, subunit IVB; Region: CoxD_Bacillus; TIGR02908 550542003004 cytochrome c oxidase assembly factor CtaG; Region: caa3_CtaG; TIGR02737 550542003005 Protein of unknown function (DUF420); Region: DUF420; pfam04238 550542003006 Asp23 family; Region: Asp23; cl00574 550542003007 YugN-like family; Region: YugN; pfam08868 550542003008 FOG: CBS domain [General function prediction only]; Region: COG0517 550542003009 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 550542003010 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 550542003011 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 550542003012 Putative coat protein; Region: YlbD_coat; pfam14071 550542003013 YlbE-like protein; Region: YlbE; pfam14003 550542003014 Protein of unknown function (DUF964); Region: DUF964; pfam06133 550542003015 hypothetical protein; Provisional; Region: PRK02886 550542003016 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 550542003017 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 550542003018 S-adenosylmethionine binding site [chemical binding]; other site 550542003019 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 550542003020 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 550542003021 active site 550542003022 (T/H)XGH motif; other site 550542003023 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 550542003024 Nucleoside recognition; Region: Gate; pfam07670 550542003025 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 550542003026 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 550542003027 active site 550542003028 nucleophile elbow; other site 550542003029 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 550542003030 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 550542003031 protein binding site [polypeptide binding]; other site 550542003032 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 550542003033 hypothetical protein; Provisional; Region: PRK13670 550542003034 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 550542003035 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 550542003036 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 550542003037 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 550542003038 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 550542003039 substrate binding site [chemical binding]; other site 550542003040 oxyanion hole (OAH) forming residues; other site 550542003041 trimer interface [polypeptide binding]; other site 550542003042 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 550542003043 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 550542003044 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 550542003045 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 550542003046 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 550542003047 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 550542003048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 550542003049 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 550542003050 MraW methylase family; Region: Methyltransf_5; pfam01795 550542003051 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 550542003052 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 550542003053 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 550542003054 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 550542003055 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 550542003056 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 550542003057 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 550542003058 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 550542003059 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 550542003060 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 550542003061 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 550542003062 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 550542003063 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 550542003064 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 550542003065 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 550542003066 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 550542003067 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 550542003068 Mg++ binding site [ion binding]; other site 550542003069 putative catalytic motif [active] 550542003070 putative substrate binding site [chemical binding]; other site 550542003071 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 550542003072 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 550542003073 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 550542003074 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 550542003075 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 550542003076 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 550542003077 Cell division protein FtsQ; Region: FtsQ; pfam03799 550542003078 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 550542003079 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 550542003080 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 550542003081 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 550542003082 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 550542003083 nucleotide binding site [chemical binding]; other site 550542003084 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 550542003085 Cell division protein FtsA; Region: FtsA; pfam14450 550542003086 cell division protein FtsZ; Validated; Region: PRK09330 550542003087 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 550542003088 nucleotide binding site [chemical binding]; other site 550542003089 SulA interaction site; other site 550542003090 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 550542003091 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 550542003092 sporulation sigma factor SigE; Reviewed; Region: PRK08301 550542003093 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550542003094 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 550542003095 DNA binding residues [nucleotide binding] 550542003096 sporulation sigma factor SigG; Reviewed; Region: PRK08215 550542003097 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550542003098 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 550542003099 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 550542003100 DNA binding residues [nucleotide binding] 550542003101 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 550542003102 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 550542003103 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 550542003104 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 550542003105 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 550542003106 catalytic residue [active] 550542003107 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 550542003108 YGGT family; Region: YGGT; pfam02325 550542003109 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 550542003110 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 550542003111 RNA binding surface [nucleotide binding]; other site 550542003112 DivIVA protein; Region: DivIVA; pfam05103 550542003113 DivIVA domain; Region: DivI1A_domain; TIGR03544 550542003114 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 550542003115 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 550542003116 HIGH motif; other site 550542003117 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 550542003118 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 550542003119 active site 550542003120 KMSKS motif; other site 550542003121 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 550542003122 tRNA binding surface [nucleotide binding]; other site 550542003123 anticodon binding site; other site 550542003124 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 550542003125 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 550542003126 lipoprotein signal peptidase; Provisional; Region: PRK14787 550542003127 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 550542003128 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 550542003129 RNA binding surface [nucleotide binding]; other site 550542003130 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 550542003131 active site 550542003132 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 550542003133 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550542003134 active site 550542003135 uracil-xanthine permease; Region: ncs2; TIGR00801 550542003136 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 550542003137 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 550542003138 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 550542003139 dihydroorotase; Validated; Region: pyrC; PRK09357 550542003140 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 550542003141 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 550542003142 active site 550542003143 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 550542003144 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 550542003145 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 550542003146 catalytic site [active] 550542003147 subunit interface [polypeptide binding]; other site 550542003148 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 550542003149 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 550542003150 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 550542003151 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 550542003152 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 550542003153 ATP-grasp domain; Region: ATP-grasp_4; cl17255 550542003154 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 550542003155 IMP binding site; other site 550542003156 dimer interface [polypeptide binding]; other site 550542003157 interdomain contacts; other site 550542003158 partial ornithine binding site; other site 550542003159 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 550542003160 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 550542003161 FAD binding pocket [chemical binding]; other site 550542003162 FAD binding motif [chemical binding]; other site 550542003163 phosphate binding motif [ion binding]; other site 550542003164 beta-alpha-beta structure motif; other site 550542003165 NAD binding pocket [chemical binding]; other site 550542003166 Iron coordination center [ion binding]; other site 550542003167 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 550542003168 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 550542003169 heterodimer interface [polypeptide binding]; other site 550542003170 active site 550542003171 FMN binding site [chemical binding]; other site 550542003172 homodimer interface [polypeptide binding]; other site 550542003173 substrate binding site [chemical binding]; other site 550542003174 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 550542003175 active site 550542003176 dimer interface [polypeptide binding]; other site 550542003177 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550542003178 active site 550542003179 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 550542003180 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542003181 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 550542003182 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542003183 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542003184 Protein of unknown function, DUF482; Region: DUF482; pfam04339 550542003185 hypothetical protein; Provisional; Region: PRK07206 550542003186 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 550542003187 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 550542003188 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550542003189 Coenzyme A binding pocket [chemical binding]; other site 550542003190 H+ Antiporter protein; Region: 2A0121; TIGR00900 550542003191 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 550542003192 beta-phosphoglucomutase; Region: bPGM; TIGR01990 550542003193 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 550542003194 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 550542003195 RHS Repeat; Region: RHS_repeat; pfam05593 550542003196 RHS Repeat; Region: RHS_repeat; cl11982 550542003197 RHS protein; Region: RHS; pfam03527 550542003198 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 550542003199 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 550542003200 putative active site [active] 550542003201 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 550542003202 putative active site [active] 550542003203 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 550542003204 Domain of unknown function (DUF814); Region: DUF814; pfam05670 550542003205 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 550542003206 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 550542003207 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 550542003208 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 550542003209 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 550542003210 motif II; other site 550542003211 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 550542003212 hypothetical protein; Provisional; Region: PRK11820 550542003213 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 550542003214 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 550542003215 hypothetical protein; Provisional; Region: PRK04323 550542003216 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 550542003217 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 550542003218 catalytic site [active] 550542003219 G-X2-G-X-G-K; other site 550542003220 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 550542003221 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 550542003222 Flavoprotein; Region: Flavoprotein; pfam02441 550542003223 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 550542003224 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 550542003225 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 550542003226 ATP binding site [chemical binding]; other site 550542003227 putative Mg++ binding site [ion binding]; other site 550542003228 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 550542003229 nucleotide binding region [chemical binding]; other site 550542003230 ATP-binding site [chemical binding]; other site 550542003231 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 550542003232 active site 550542003233 catalytic residues [active] 550542003234 metal binding site [ion binding]; metal-binding site 550542003235 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 550542003236 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 550542003237 putative active site [active] 550542003238 substrate binding site [chemical binding]; other site 550542003239 putative cosubstrate binding site; other site 550542003240 catalytic site [active] 550542003241 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 550542003242 substrate binding site [chemical binding]; other site 550542003243 16S rRNA methyltransferase B; Provisional; Region: PRK14902 550542003244 NusB family; Region: NusB; pfam01029 550542003245 putative RNA binding site [nucleotide binding]; other site 550542003246 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 550542003247 S-adenosylmethionine binding site [chemical binding]; other site 550542003248 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 550542003249 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 550542003250 FeS/SAM binding site; other site 550542003251 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 550542003252 Protein phosphatase 2C; Region: PP2C; pfam00481 550542003253 active site 550542003254 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 550542003255 Catalytic domain of Protein Kinases; Region: PKc; cd00180 550542003256 active site 550542003257 ATP binding site [chemical binding]; other site 550542003258 substrate binding site [chemical binding]; other site 550542003259 activation loop (A-loop); other site 550542003260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 550542003261 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 550542003262 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 550542003263 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 550542003264 GTPase RsgA; Reviewed; Region: PRK00098 550542003265 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 550542003266 RNA binding site [nucleotide binding]; other site 550542003267 homodimer interface [polypeptide binding]; other site 550542003268 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 550542003269 GTPase/Zn-binding domain interface [polypeptide binding]; other site 550542003270 GTP/Mg2+ binding site [chemical binding]; other site 550542003271 G4 box; other site 550542003272 G5 box; other site 550542003273 G1 box; other site 550542003274 Switch I region; other site 550542003275 G2 box; other site 550542003276 G3 box; other site 550542003277 Switch II region; other site 550542003278 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 550542003279 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 550542003280 substrate binding site [chemical binding]; other site 550542003281 hexamer interface [polypeptide binding]; other site 550542003282 metal binding site [ion binding]; metal-binding site 550542003283 Thiamine pyrophosphokinase; Region: TPK; cd07995 550542003284 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 550542003285 active site 550542003286 dimerization interface [polypeptide binding]; other site 550542003287 thiamine binding site [chemical binding]; other site 550542003288 stage V sporulation protein M; Provisional; Region: spoVM; PRK14741 550542003289 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 550542003290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 550542003291 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 550542003292 DAK2 domain; Region: Dak2; pfam02734 550542003293 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 550542003294 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 550542003295 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 550542003296 putative L-serine binding site [chemical binding]; other site 550542003297 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 550542003298 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 550542003299 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 550542003300 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 550542003301 generic binding surface II; other site 550542003302 ssDNA binding site; other site 550542003303 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 550542003304 ATP binding site [chemical binding]; other site 550542003305 putative Mg++ binding site [ion binding]; other site 550542003306 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 550542003307 nucleotide binding region [chemical binding]; other site 550542003308 ATP-binding site [chemical binding]; other site 550542003309 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 550542003310 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 550542003311 active site 2 [active] 550542003312 active site 1 [active] 550542003313 putative phosphate acyltransferase; Provisional; Region: PRK05331 550542003314 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 550542003315 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 550542003316 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 550542003317 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 550542003318 NAD(P) binding site [chemical binding]; other site 550542003319 homotetramer interface [polypeptide binding]; other site 550542003320 homodimer interface [polypeptide binding]; other site 550542003321 active site 550542003322 acyl carrier protein; Provisional; Region: acpP; PRK00982 550542003323 ribonuclease III; Reviewed; Region: rnc; PRK00102 550542003324 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 550542003325 dimerization interface [polypeptide binding]; other site 550542003326 active site 550542003327 metal binding site [ion binding]; metal-binding site 550542003328 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 550542003329 dsRNA binding site [nucleotide binding]; other site 550542003330 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 550542003331 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 550542003332 Walker A/P-loop; other site 550542003333 ATP binding site [chemical binding]; other site 550542003334 Q-loop/lid; other site 550542003335 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 550542003336 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 550542003337 ABC transporter signature motif; other site 550542003338 Walker B; other site 550542003339 D-loop; other site 550542003340 H-loop/switch region; other site 550542003341 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 550542003342 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 550542003343 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 550542003344 P loop; other site 550542003345 GTP binding site [chemical binding]; other site 550542003346 putative DNA-binding protein; Validated; Region: PRK00118 550542003347 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 550542003348 signal recognition particle protein; Provisional; Region: PRK10867 550542003349 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 550542003350 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 550542003351 P loop; other site 550542003352 GTP binding site [chemical binding]; other site 550542003353 Signal peptide binding domain; Region: SRP_SPB; pfam02978 550542003354 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 550542003355 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 550542003356 KH domain; Region: KH_4; pfam13083 550542003357 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 550542003358 Probable transposase; Region: OrfB_IS605; pfam01385 550542003359 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 550542003360 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 550542003361 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 550542003362 RimM N-terminal domain; Region: RimM; pfam01782 550542003363 PRC-barrel domain; Region: PRC; pfam05239 550542003364 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 550542003365 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 550542003366 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 550542003367 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 550542003368 Catalytic site [active] 550542003369 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 550542003370 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 550542003371 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 550542003372 GTP/Mg2+ binding site [chemical binding]; other site 550542003373 G4 box; other site 550542003374 G5 box; other site 550542003375 G1 box; other site 550542003376 Switch I region; other site 550542003377 G2 box; other site 550542003378 G3 box; other site 550542003379 Switch II region; other site 550542003380 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 550542003381 RNA/DNA hybrid binding site [nucleotide binding]; other site 550542003382 active site 550542003383 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 550542003384 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 550542003385 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 550542003386 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 550542003387 CoA-ligase; Region: Ligase_CoA; pfam00549 550542003388 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 550542003389 CoA binding domain; Region: CoA_binding; pfam02629 550542003390 CoA-ligase; Region: Ligase_CoA; pfam00549 550542003391 DNA protecting protein DprA; Region: dprA; TIGR00732 550542003392 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 550542003393 DNA topoisomerase I; Validated; Region: PRK05582 550542003394 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 550542003395 active site 550542003396 interdomain interaction site; other site 550542003397 putative metal-binding site [ion binding]; other site 550542003398 nucleotide binding site [chemical binding]; other site 550542003399 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 550542003400 domain I; other site 550542003401 DNA binding groove [nucleotide binding] 550542003402 phosphate binding site [ion binding]; other site 550542003403 domain II; other site 550542003404 domain III; other site 550542003405 nucleotide binding site [chemical binding]; other site 550542003406 catalytic site [active] 550542003407 domain IV; other site 550542003408 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 550542003409 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 550542003410 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 550542003411 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 550542003412 active site 550542003413 Int/Topo IB signature motif; other site 550542003414 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 550542003415 active site 550542003416 HslU subunit interaction site [polypeptide binding]; other site 550542003417 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 550542003418 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 550542003419 Walker A motif; other site 550542003420 ATP binding site [chemical binding]; other site 550542003421 Walker B motif; other site 550542003422 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 550542003423 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 550542003424 transcriptional repressor CodY; Validated; Region: PRK04158 550542003425 CodY GAF-like domain; Region: CodY; pfam06018 550542003426 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 550542003427 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 550542003428 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 550542003429 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 550542003430 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 550542003431 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 550542003432 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 550542003433 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 550542003434 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 550542003435 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 550542003436 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 550542003437 MgtE intracellular N domain; Region: MgtE_N; cl15244 550542003438 FliG C-terminal domain; Region: FliG_C; pfam01706 550542003439 flagellar assembly protein FliH; Region: FliH_bacil; TIGR03825 550542003440 Flagellar assembly protein FliH; Region: FliH; pfam02108 550542003441 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07721 550542003442 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 550542003443 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 550542003444 Walker A motif/ATP binding site; other site 550542003445 Walker B motif; other site 550542003446 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 550542003447 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 550542003448 MgtE intracellular N domain; Region: MgtE_N; cl15244 550542003449 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 550542003450 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 550542003451 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 550542003452 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 550542003453 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 550542003454 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 550542003455 Flagellar protein (FlbD); Region: FlbD; pfam06289 550542003456 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 550542003457 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 550542003458 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 550542003459 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 550542003460 flagellar motor switch protein; Validated; Region: PRK08119 550542003461 CheC-like family; Region: CheC; pfam04509 550542003462 CheC-like family; Region: CheC; pfam04509 550542003463 flagellar motor switch protein FliN; Region: fliN; TIGR02480 550542003464 Response regulator receiver domain; Region: Response_reg; pfam00072 550542003465 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 550542003466 active site 550542003467 phosphorylation site [posttranslational modification] 550542003468 intermolecular recognition site; other site 550542003469 dimerization interface [polypeptide binding]; other site 550542003470 flagella biosynthesis protein FliZ; Provisional; Region: PRK13415 550542003471 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 550542003472 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 550542003473 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 550542003474 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 550542003475 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 550542003476 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 550542003477 FHIPEP family; Region: FHIPEP; pfam00771 550542003478 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 550542003479 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 550542003480 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 550542003481 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 550542003482 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 550542003483 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 550542003484 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 550542003485 active site 550542003486 phosphorylation site [posttranslational modification] 550542003487 intermolecular recognition site; other site 550542003488 dimerization interface [polypeptide binding]; other site 550542003489 CheB methylesterase; Region: CheB_methylest; pfam01339 550542003490 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 550542003491 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 550542003492 putative binding surface; other site 550542003493 active site 550542003494 P2 response regulator binding domain; Region: P2; pfam07194 550542003495 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 550542003496 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 550542003497 ATP binding site [chemical binding]; other site 550542003498 Mg2+ binding site [ion binding]; other site 550542003499 G-X-G motif; other site 550542003500 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 550542003501 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 550542003502 putative CheA interaction surface; other site 550542003503 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 550542003504 Chemotaxis phosphatase CheX; Region: CheX; cl15816 550542003505 CheC-like family; Region: CheC; pfam04509 550542003506 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 550542003507 RNA polymerase sigma factor SigD; Validated; Region: PRK07670 550542003508 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550542003509 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 550542003510 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 550542003511 DNA binding residues [nucleotide binding] 550542003512 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 550542003513 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 550542003514 rRNA interaction site [nucleotide binding]; other site 550542003515 S8 interaction site; other site 550542003516 putative laminin-1 binding site; other site 550542003517 elongation factor Ts; Provisional; Region: tsf; PRK09377 550542003518 UBA/TS-N domain; Region: UBA; pfam00627 550542003519 Elongation factor TS; Region: EF_TS; pfam00889 550542003520 Elongation factor TS; Region: EF_TS; pfam00889 550542003521 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 550542003522 putative nucleotide binding site [chemical binding]; other site 550542003523 uridine monophosphate binding site [chemical binding]; other site 550542003524 homohexameric interface [polypeptide binding]; other site 550542003525 ribosome recycling factor; Reviewed; Region: frr; PRK00083 550542003526 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 550542003527 hinge region; other site 550542003528 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 550542003529 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 550542003530 catalytic residue [active] 550542003531 putative FPP diphosphate binding site; other site 550542003532 putative FPP binding hydrophobic cleft; other site 550542003533 dimer interface [polypeptide binding]; other site 550542003534 putative IPP diphosphate binding site; other site 550542003535 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 550542003536 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 550542003537 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 550542003538 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 550542003539 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 550542003540 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 550542003541 RIP metalloprotease RseP; Region: TIGR00054 550542003542 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 550542003543 active site 550542003544 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 550542003545 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 550542003546 protein binding site [polypeptide binding]; other site 550542003547 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 550542003548 putative substrate binding region [chemical binding]; other site 550542003549 prolyl-tRNA synthetase; Provisional; Region: PRK09194 550542003550 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 550542003551 dimer interface [polypeptide binding]; other site 550542003552 motif 1; other site 550542003553 active site 550542003554 motif 2; other site 550542003555 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 550542003556 putative deacylase active site [active] 550542003557 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 550542003558 active site 550542003559 motif 3; other site 550542003560 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 550542003561 anticodon binding site; other site 550542003562 DNA polymerase III PolC; Validated; Region: polC; PRK00448 550542003563 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 550542003564 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 550542003565 generic binding surface I; other site 550542003566 generic binding surface II; other site 550542003567 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 550542003568 active site 550542003569 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 550542003570 active site 550542003571 catalytic site [active] 550542003572 substrate binding site [chemical binding]; other site 550542003573 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 550542003574 ribosome maturation protein RimP; Reviewed; Region: PRK00092 550542003575 Sm and related proteins; Region: Sm_like; cl00259 550542003576 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 550542003577 putative oligomer interface [polypeptide binding]; other site 550542003578 putative RNA binding site [nucleotide binding]; other site 550542003579 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 550542003580 NusA N-terminal domain; Region: NusA_N; pfam08529 550542003581 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 550542003582 RNA binding site [nucleotide binding]; other site 550542003583 homodimer interface [polypeptide binding]; other site 550542003584 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 550542003585 G-X-X-G motif; other site 550542003586 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 550542003587 G-X-X-G motif; other site 550542003588 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 550542003589 putative RNA binding cleft [nucleotide binding]; other site 550542003590 hypothetical protein; Provisional; Region: PRK07714 550542003591 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 550542003592 translation initiation factor IF-2; Region: IF-2; TIGR00487 550542003593 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 550542003594 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 550542003595 G1 box; other site 550542003596 putative GEF interaction site [polypeptide binding]; other site 550542003597 GTP/Mg2+ binding site [chemical binding]; other site 550542003598 Switch I region; other site 550542003599 G2 box; other site 550542003600 G3 box; other site 550542003601 Switch II region; other site 550542003602 G4 box; other site 550542003603 G5 box; other site 550542003604 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 550542003605 Translation-initiation factor 2; Region: IF-2; pfam11987 550542003606 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 550542003607 Protein of unknown function (DUF503); Region: DUF503; pfam04456 550542003608 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 550542003609 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 550542003610 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 550542003611 RNA binding site [nucleotide binding]; other site 550542003612 active site 550542003613 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 550542003614 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 550542003615 active site 550542003616 Riboflavin kinase; Region: Flavokinase; smart00904 550542003617 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 550542003618 16S/18S rRNA binding site [nucleotide binding]; other site 550542003619 S13e-L30e interaction site [polypeptide binding]; other site 550542003620 25S rRNA binding site [nucleotide binding]; other site 550542003621 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 550542003622 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 550542003623 RNase E interface [polypeptide binding]; other site 550542003624 trimer interface [polypeptide binding]; other site 550542003625 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 550542003626 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 550542003627 RNase E interface [polypeptide binding]; other site 550542003628 trimer interface [polypeptide binding]; other site 550542003629 active site 550542003630 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 550542003631 putative nucleic acid binding region [nucleotide binding]; other site 550542003632 G-X-X-G motif; other site 550542003633 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 550542003634 RNA binding site [nucleotide binding]; other site 550542003635 domain interface; other site 550542003636 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542003637 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542003638 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542003639 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542003640 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 550542003641 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 550542003642 NodB motif; other site 550542003643 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 550542003644 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 550542003645 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 550542003646 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 550542003647 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 550542003648 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 550542003649 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 550542003650 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 550542003651 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 550542003652 aspartate kinase I; Reviewed; Region: PRK08210 550542003653 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 550542003654 nucleotide binding site [chemical binding]; other site 550542003655 substrate binding site [chemical binding]; other site 550542003656 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 550542003657 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 550542003658 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 550542003659 dihydrodipicolinate synthase; Region: dapA; TIGR00674 550542003660 dimer interface [polypeptide binding]; other site 550542003661 active site 550542003662 catalytic residue [active] 550542003663 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 550542003664 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550542003665 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 550542003666 Clp protease; Region: CLP_protease; pfam00574 550542003667 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 550542003668 active site 550542003669 YlzJ-like protein; Region: YlzJ; pfam14035 550542003670 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 550542003671 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 550542003672 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 550542003673 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 550542003674 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 550542003675 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550542003676 DNA-binding site [nucleotide binding]; DNA binding site 550542003677 UTRA domain; Region: UTRA; pfam07702 550542003678 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 550542003679 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 550542003680 ligand binding site [chemical binding]; other site 550542003681 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 550542003682 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 550542003683 Walker A/P-loop; other site 550542003684 ATP binding site [chemical binding]; other site 550542003685 Q-loop/lid; other site 550542003686 ABC transporter signature motif; other site 550542003687 Walker B; other site 550542003688 D-loop; other site 550542003689 H-loop/switch region; other site 550542003690 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 550542003691 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550542003692 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 550542003693 TM-ABC transporter signature motif; other site 550542003694 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550542003695 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 550542003696 TM-ABC transporter signature motif; other site 550542003697 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 550542003698 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 550542003699 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 550542003700 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 550542003701 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 550542003702 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 550542003703 classical (c) SDRs; Region: SDR_c; cd05233 550542003704 NAD(P) binding site [chemical binding]; other site 550542003705 active site 550542003706 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 550542003707 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542003708 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542003709 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542003710 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542003711 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 550542003712 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 550542003713 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 550542003714 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 550542003715 non-specific DNA binding site [nucleotide binding]; other site 550542003716 salt bridge; other site 550542003717 sequence-specific DNA binding site [nucleotide binding]; other site 550542003718 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 550542003719 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 550542003720 competence damage-inducible protein A; Provisional; Region: PRK00549 550542003721 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 550542003722 putative MPT binding site; other site 550542003723 Competence-damaged protein; Region: CinA; pfam02464 550542003724 recA bacterial DNA recombination protein; Region: RecA; cl17211 550542003725 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 550542003726 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 550542003727 putative active site [active] 550542003728 putative NTP binding site [chemical binding]; other site 550542003729 putative nucleic acid binding site [nucleotide binding]; other site 550542003730 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 550542003731 active site 550542003732 recA bacterial DNA recombination protein; Region: RecA; cl17211 550542003733 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 550542003734 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 550542003735 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550542003736 Zn2+ binding site [ion binding]; other site 550542003737 Mg2+ binding site [ion binding]; other site 550542003738 Cation efflux family; Region: Cation_efflux; cl00316 550542003739 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 550542003740 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 550542003741 putative active site [active] 550542003742 metal binding site [ion binding]; metal-binding site 550542003743 homodimer binding site [polypeptide binding]; other site 550542003744 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 550542003745 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 550542003746 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 550542003747 active site 550542003748 dimer interface [polypeptide binding]; other site 550542003749 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 550542003750 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 550542003751 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 550542003752 dimer interface [polypeptide binding]; other site 550542003753 PYR/PP interface [polypeptide binding]; other site 550542003754 TPP binding site [chemical binding]; other site 550542003755 substrate binding site [chemical binding]; other site 550542003756 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 550542003757 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 550542003758 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 550542003759 TPP-binding site [chemical binding]; other site 550542003760 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 550542003761 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 550542003762 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 550542003763 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 550542003764 FeS/SAM binding site; other site 550542003765 TRAM domain; Region: TRAM; cl01282 550542003766 Predicted membrane protein [Function unknown]; Region: COG4550 550542003767 Outer spore coat protein E (CotE); Region: CotE; pfam10628 550542003768 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 550542003769 MutS domain I; Region: MutS_I; pfam01624 550542003770 MutS domain II; Region: MutS_II; pfam05188 550542003771 MutS domain III; Region: MutS_III; pfam05192 550542003772 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 550542003773 Walker A/P-loop; other site 550542003774 ATP binding site [chemical binding]; other site 550542003775 Q-loop/lid; other site 550542003776 ABC transporter signature motif; other site 550542003777 Walker B; other site 550542003778 D-loop; other site 550542003779 H-loop/switch region; other site 550542003780 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 550542003781 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 550542003782 ATP binding site [chemical binding]; other site 550542003783 Mg2+ binding site [ion binding]; other site 550542003784 G-X-G motif; other site 550542003785 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 550542003786 ATP binding site [chemical binding]; other site 550542003787 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 550542003788 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542003789 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 550542003790 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542003791 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 550542003792 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542003793 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 550542003794 NlpC/P60 family; Region: NLPC_P60; pfam00877 550542003795 BCCT family transporter; Region: BCCT; pfam02028 550542003796 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542003797 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542003798 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542003799 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542003800 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 550542003801 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 550542003802 putative substrate translocation pore; other site 550542003803 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 550542003804 CHASE3 domain; Region: CHASE3; cl05000 550542003805 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 550542003806 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 550542003807 dimerization interface [polypeptide binding]; other site 550542003808 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550542003809 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550542003810 dimer interface [polypeptide binding]; other site 550542003811 putative CheW interface [polypeptide binding]; other site 550542003812 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 550542003813 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 550542003814 bacterial Hfq-like; Region: Hfq; cd01716 550542003815 hexamer interface [polypeptide binding]; other site 550542003816 Sm1 motif; other site 550542003817 RNA binding site [nucleotide binding]; other site 550542003818 Sm2 motif; other site 550542003819 stage V sporulation protein K; Region: spore_V_K; TIGR02881 550542003820 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 550542003821 Walker A motif; other site 550542003822 ATP binding site [chemical binding]; other site 550542003823 Walker B motif; other site 550542003824 arginine finger; other site 550542003825 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 550542003826 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 550542003827 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 550542003828 acyl-activating enzyme (AAE) consensus motif; other site 550542003829 acyl-activating enzyme (AAE) consensus motif; other site 550542003830 putative AMP binding site [chemical binding]; other site 550542003831 putative active site [active] 550542003832 putative CoA binding site [chemical binding]; other site 550542003833 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550542003834 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 550542003835 active site 550542003836 putative CoA-transferase; Provisional; Region: PRK11430 550542003837 CoA-transferase family III; Region: CoA_transf_3; pfam02515 550542003838 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 550542003839 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 550542003840 dimer interface [polypeptide binding]; other site 550542003841 acyl-activating enzyme (AAE) consensus motif; other site 550542003842 putative active site [active] 550542003843 AMP binding site [chemical binding]; other site 550542003844 putative CoA binding site [chemical binding]; other site 550542003845 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 550542003846 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 550542003847 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 550542003848 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 550542003849 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 550542003850 dimer interface [polypeptide binding]; other site 550542003851 active site 550542003852 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 550542003853 EamA-like transporter family; Region: EamA; pfam00892 550542003854 EamA-like transporter family; Region: EamA; pfam00892 550542003855 Predicted membrane protein [Function unknown]; Region: COG2860 550542003856 UPF0126 domain; Region: UPF0126; pfam03458 550542003857 UPF0126 domain; Region: UPF0126; pfam03458 550542003858 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 550542003859 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 550542003860 HflX GTPase family; Region: HflX; cd01878 550542003861 G1 box; other site 550542003862 GTP/Mg2+ binding site [chemical binding]; other site 550542003863 Switch I region; other site 550542003864 G2 box; other site 550542003865 G3 box; other site 550542003866 Switch II region; other site 550542003867 G4 box; other site 550542003868 G5 box; other site 550542003869 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 550542003870 Aluminium resistance protein; Region: Alum_res; pfam06838 550542003871 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 550542003872 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 550542003873 DNA binding residues [nucleotide binding] 550542003874 putative dimer interface [polypeptide binding]; other site 550542003875 glutamine synthetase, type I; Region: GlnA; TIGR00653 550542003876 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 550542003877 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 550542003878 LexA repressor; Validated; Region: PRK00215 550542003879 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 550542003880 putative DNA binding site [nucleotide binding]; other site 550542003881 putative Zn2+ binding site [ion binding]; other site 550542003882 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 550542003883 Catalytic site [active] 550542003884 cell division suppressor protein YneA; Provisional; Region: PRK14125 550542003885 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542003886 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 550542003887 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 550542003888 catalytic residues [active] 550542003889 catalytic nucleophile [active] 550542003890 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 550542003891 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 550542003892 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 550542003893 TPP-binding site [chemical binding]; other site 550542003894 dimer interface [polypeptide binding]; other site 550542003895 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 550542003896 PYR/PP interface [polypeptide binding]; other site 550542003897 dimer interface [polypeptide binding]; other site 550542003898 TPP binding site [chemical binding]; other site 550542003899 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 550542003900 Protein of unknown function (DUF2522); Region: DUF2522; pfam10747 550542003901 hypothetical protein; Provisional; Region: PRK01844 550542003902 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 550542003903 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 550542003904 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550542003905 Walker A/P-loop; other site 550542003906 ATP binding site [chemical binding]; other site 550542003907 Q-loop/lid; other site 550542003908 ABC transporter signature motif; other site 550542003909 Walker B; other site 550542003910 D-loop; other site 550542003911 H-loop/switch region; other site 550542003912 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 550542003913 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 550542003914 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 550542003915 Walker A/P-loop; other site 550542003916 ATP binding site [chemical binding]; other site 550542003917 Q-loop/lid; other site 550542003918 ABC transporter signature motif; other site 550542003919 Walker B; other site 550542003920 D-loop; other site 550542003921 H-loop/switch region; other site 550542003922 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 550542003923 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 550542003924 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 550542003925 Response regulator receiver domain; Region: Response_reg; pfam00072 550542003926 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 550542003927 active site 550542003928 phosphorylation site [posttranslational modification] 550542003929 intermolecular recognition site; other site 550542003930 dimerization interface [polypeptide binding]; other site 550542003931 Protein of unknown function (DUF1453); Region: DUF1453; pfam07301 550542003932 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 550542003933 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 550542003934 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542003935 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 550542003936 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 550542003937 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 550542003938 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 550542003939 Walker A motif; other site 550542003940 ATP binding site [chemical binding]; other site 550542003941 Walker B motif; other site 550542003942 arginine finger; other site 550542003943 Transcriptional antiterminator [Transcription]; Region: COG3933 550542003944 PRD domain; Region: PRD; pfam00874 550542003945 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 550542003946 active pocket/dimerization site; other site 550542003947 active site 550542003948 phosphorylation site [posttranslational modification] 550542003949 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 550542003950 active site 550542003951 P-loop; other site 550542003952 phosphorylation site [posttranslational modification] 550542003953 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 550542003954 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 550542003955 putative active site [active] 550542003956 YdjC motif; other site 550542003957 Mg binding site [ion binding]; other site 550542003958 putative homodimer interface [polypeptide binding]; other site 550542003959 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 550542003960 methionine cluster; other site 550542003961 active site 550542003962 phosphorylation site [posttranslational modification] 550542003963 metal binding site [ion binding]; metal-binding site 550542003964 acid-soluble spore protein P; Provisional; Region: sspP; PRK09399 550542003965 acid-soluble spore protein O; Provisional; Region: sspO; PRK02984 550542003966 aconitate hydratase; Validated; Region: PRK09277 550542003967 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 550542003968 substrate binding site [chemical binding]; other site 550542003969 ligand binding site [chemical binding]; other site 550542003970 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 550542003971 substrate binding site [chemical binding]; other site 550542003972 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 550542003973 EamA-like transporter family; Region: EamA; pfam00892 550542003974 hypothetical protein; Validated; Region: PRK07708 550542003975 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 550542003976 RNA/DNA hybrid binding site [nucleotide binding]; other site 550542003977 active site 550542003978 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 550542003979 Protein of unknown function (DUF2564); Region: DUF2564; pfam10819 550542003980 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 550542003981 DNA-binding site [nucleotide binding]; DNA binding site 550542003982 RNA-binding motif; other site 550542003983 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 550542003984 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 550542003985 amphipathic channel; other site 550542003986 Asn-Pro-Ala signature motifs; other site 550542003987 glycerol kinase; Provisional; Region: glpK; PRK00047 550542003988 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 550542003989 N- and C-terminal domain interface [polypeptide binding]; other site 550542003990 active site 550542003991 MgATP binding site [chemical binding]; other site 550542003992 catalytic site [active] 550542003993 metal binding site [ion binding]; metal-binding site 550542003994 glycerol binding site [chemical binding]; other site 550542003995 homotetramer interface [polypeptide binding]; other site 550542003996 homodimer interface [polypeptide binding]; other site 550542003997 FBP binding site [chemical binding]; other site 550542003998 protein IIAGlc interface [polypeptide binding]; other site 550542003999 PAS domain; Region: PAS_9; pfam13426 550542004000 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 550542004001 putative active site [active] 550542004002 heme pocket [chemical binding]; other site 550542004003 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 550542004004 GAF domain; Region: GAF; pfam01590 550542004005 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550542004006 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550542004007 metal binding site [ion binding]; metal-binding site 550542004008 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 550542004009 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 550542004010 active site 550542004011 metal binding site [ion binding]; metal-binding site 550542004012 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 550542004013 CoenzymeA binding site [chemical binding]; other site 550542004014 subunit interaction site [polypeptide binding]; other site 550542004015 PHB binding site; other site 550542004016 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 550542004017 CoenzymeA binding site [chemical binding]; other site 550542004018 subunit interaction site [polypeptide binding]; other site 550542004019 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 550542004020 PHB binding site; other site 550542004021 formimidoylglutamase; Provisional; Region: PRK13775 550542004022 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 550542004023 putative active site [active] 550542004024 putative metal binding site [ion binding]; other site 550542004025 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 550542004026 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550542004027 urocanate hydratase; Provisional; Region: PRK05414 550542004028 imidazolonepropionase; Validated; Region: PRK09356 550542004029 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 550542004030 active site 550542004031 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 550542004032 Nucleoside recognition; Region: Gate; pfam07670 550542004033 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13953 550542004034 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 550542004035 Predicted transporter component [General function prediction only]; Region: COG2391 550542004036 Sulphur transport; Region: Sulf_transp; pfam04143 550542004037 Sulphur transport; Region: Sulf_transp; pfam04143 550542004038 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 550542004039 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 550542004040 substrate binding site [chemical binding]; other site 550542004041 ATP binding site [chemical binding]; other site 550542004042 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 550542004043 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 550542004044 HEAT repeats; Region: HEAT_2; pfam13646 550542004045 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 550542004046 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 550542004047 non-specific DNA binding site [nucleotide binding]; other site 550542004048 salt bridge; other site 550542004049 sequence-specific DNA binding site [nucleotide binding]; other site 550542004050 Domain of unknown function (DUF955); Region: DUF955; cl01076 550542004051 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 550542004052 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 550542004053 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 550542004054 putative active site [active] 550542004055 metal binding site [ion binding]; metal-binding site 550542004056 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 550542004057 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 550542004058 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 550542004059 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 550542004060 Protein of unknown function (DUF524); Region: DUF524; pfam04411 550542004061 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 550542004062 non-specific DNA binding site [nucleotide binding]; other site 550542004063 salt bridge; other site 550542004064 sequence-specific DNA binding site [nucleotide binding]; other site 550542004065 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_c; cd10311 550542004066 putative active site [active] 550542004067 catalytic site [active] 550542004068 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 550542004069 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 550542004070 ATP binding site [chemical binding]; other site 550542004071 putative Mg++ binding site [ion binding]; other site 550542004072 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 550542004073 nucleotide binding region [chemical binding]; other site 550542004074 ATP-binding site [chemical binding]; other site 550542004075 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 550542004076 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 550542004077 DNA methylase; Region: N6_N4_Mtase; cl17433 550542004078 DNA methylase; Region: N6_N4_Mtase; pfam01555 550542004079 DNA methylase; Region: N6_N4_Mtase; cl17433 550542004080 Restriction endonuclease [Defense mechanisms]; Region: COG3587 550542004081 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 550542004082 ATP binding site [chemical binding]; other site 550542004083 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542004084 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542004085 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542004086 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542004087 Uncharacterized conserved protein [Function unknown]; Region: COG4127 550542004088 EVE domain; Region: EVE; cl00728 550542004089 Restriction endonuclease; Region: Mrr_cat; pfam04471 550542004090 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 550542004091 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 550542004092 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 550542004093 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 550542004094 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 550542004095 malate:quinone oxidoreductase; Validated; Region: PRK05257 550542004096 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 550542004097 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 550542004098 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 550542004099 DXD motif; other site 550542004100 hypothetical protein; Provisional; Region: PRK03057 550542004101 UPF0302 domain; Region: UPF0302; pfam08864 550542004102 A short protein domain of unknown function; Region: IDEAL; smart00914 550542004103 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 550542004104 hydroxyglutarate oxidase; Provisional; Region: PRK11728 550542004105 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550542004106 Protein of unknown function (DUF975); Region: DUF975; cl10504 550542004107 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 550542004108 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 550542004109 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 550542004110 dimerization interface [polypeptide binding]; other site 550542004111 putative DNA binding site [nucleotide binding]; other site 550542004112 putative Zn2+ binding site [ion binding]; other site 550542004113 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 550542004114 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550542004115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550542004116 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 550542004117 putative dimerization interface [polypeptide binding]; other site 550542004118 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 550542004119 Flavodoxin; Region: Flavodoxin_1; pfam00258 550542004120 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 550542004121 FAD binding pocket [chemical binding]; other site 550542004122 FAD binding motif [chemical binding]; other site 550542004123 catalytic residues [active] 550542004124 NAD binding pocket [chemical binding]; other site 550542004125 phosphate binding motif [ion binding]; other site 550542004126 beta-alpha-beta structure motif; other site 550542004127 sulfite reductase subunit beta; Provisional; Region: PRK13504 550542004128 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 550542004129 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 550542004130 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12859 550542004131 classical (c) SDRs; Region: SDR_c; cd05233 550542004132 NAD(P) binding site [chemical binding]; other site 550542004133 active site 550542004134 Protein of unknown function (DUF998); Region: DUF998; pfam06197 550542004135 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 550542004136 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 550542004137 putative DNA binding site [nucleotide binding]; other site 550542004138 putative Zn2+ binding site [ion binding]; other site 550542004139 AAA domain; Region: AAA_30; pfam13604 550542004140 AAA domain; Region: AAA_11; pfam13086 550542004141 AAA domain; Region: AAA_12; pfam13087 550542004142 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 550542004143 DNA methylase; Region: N6_N4_Mtase; pfam01555 550542004144 DNA methylase; Region: N6_N4_Mtase; cl17433 550542004145 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 550542004146 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 550542004147 Na binding site [ion binding]; other site 550542004148 putative substrate binding site [chemical binding]; other site 550542004149 mammalian-like beta-alanine synthase (beta-AS) and similar proteins (class 5 nitrilases); Region: ML_beta-AS_like; cd07568 550542004150 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 550542004151 putative active site [active] 550542004152 catalytic triad [active] 550542004153 multimer interface [polypeptide binding]; other site 550542004154 dimer interface [polypeptide binding]; other site 550542004155 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 550542004156 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 550542004157 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550542004158 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550542004159 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 550542004160 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 550542004161 homodimer interface [polypeptide binding]; other site 550542004162 active site 550542004163 FMN binding site [chemical binding]; other site 550542004164 substrate binding site [chemical binding]; other site 550542004165 4Fe-4S binding domain; Region: Fer4; pfam00037 550542004166 phenylhydantoinase; Validated; Region: PRK08323 550542004167 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 550542004168 tetramer interface [polypeptide binding]; other site 550542004169 active site 550542004170 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 550542004171 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 550542004172 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 550542004173 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 550542004174 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 550542004175 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 550542004176 tetrameric interface [polypeptide binding]; other site 550542004177 NAD binding site [chemical binding]; other site 550542004178 catalytic residues [active] 550542004179 aminotransferase; Validated; Region: PRK07678 550542004180 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 550542004181 inhibitor-cofactor binding pocket; inhibition site 550542004182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542004183 catalytic residue [active] 550542004184 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 550542004185 Probable transposase; Region: OrfB_IS605; pfam01385 550542004186 Yhfp putative quinone oxidoreductases; Region: MDR_yhfp_like; cd08289 550542004187 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 550542004188 putative NADP binding site [chemical binding]; other site 550542004189 putative dimer interface [polypeptide binding]; other site 550542004190 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 550542004191 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 550542004192 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 550542004193 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 550542004194 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550542004195 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550542004196 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 550542004197 putative dimerization interface [polypeptide binding]; other site 550542004198 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 550542004199 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 550542004200 active site 550542004201 dimer interface [polypeptide binding]; other site 550542004202 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 550542004203 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 550542004204 active site 550542004205 FMN binding site [chemical binding]; other site 550542004206 substrate binding site [chemical binding]; other site 550542004207 3Fe-4S cluster binding site [ion binding]; other site 550542004208 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 550542004209 domain interface; other site 550542004210 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 550542004211 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 550542004212 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 550542004213 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 550542004214 active site 550542004215 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 550542004216 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 550542004217 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 550542004218 Phosphotransferase enzyme family; Region: APH; pfam01636 550542004219 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 550542004220 active site 550542004221 ATP binding site [chemical binding]; other site 550542004222 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 550542004223 substrate binding site [chemical binding]; other site 550542004224 NAD-dependent deacetylase; Provisional; Region: PRK00481 550542004225 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 550542004226 NAD+ binding site [chemical binding]; other site 550542004227 substrate binding site [chemical binding]; other site 550542004228 Zn binding site [ion binding]; other site 550542004229 intracellular protease, PfpI family; Region: PfpI; TIGR01382 550542004230 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 550542004231 conserved cys residue [active] 550542004232 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 550542004233 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 550542004234 Malic enzyme, N-terminal domain; Region: malic; pfam00390 550542004235 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 550542004236 putative NAD(P) binding site [chemical binding]; other site 550542004237 hypothetical protein; Provisional; Region: PRK02947 550542004238 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 550542004239 putative active site [active] 550542004240 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 550542004241 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 550542004242 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 550542004243 putative active site [active] 550542004244 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 550542004245 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 550542004246 active site 550542004247 phosphorylation site [posttranslational modification] 550542004248 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 550542004249 active site 550542004250 P-loop; other site 550542004251 phosphorylation site [posttranslational modification] 550542004252 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 550542004253 alpha-mannosidase; Provisional; Region: PRK09819 550542004254 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 550542004255 active site 550542004256 metal binding site [ion binding]; metal-binding site 550542004257 catalytic site [active] 550542004258 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 550542004259 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 550542004260 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 550542004261 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 550542004262 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550542004263 putative substrate translocation pore; other site 550542004264 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 550542004265 LysE type translocator; Region: LysE; cl00565 550542004266 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 550542004267 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; pfam10112 550542004268 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 550542004269 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 550542004270 Protein of unknown function (DUF4025); Region: DUF4025; pfam13217 550542004271 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 550542004272 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 550542004273 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 550542004274 metal binding triad; other site 550542004275 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 550542004276 hypothetical protein; Provisional; Region: PRK07740 550542004277 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 550542004278 active site 550542004279 catalytic site [active] 550542004280 substrate binding site [chemical binding]; other site 550542004281 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 550542004282 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550542004283 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 550542004284 putative substrate translocation pore; other site 550542004285 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 550542004286 salicylate hydroxylase; Provisional; Region: PRK08163 550542004287 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 550542004288 Cupin domain; Region: Cupin_2; pfam07883 550542004289 Cupin domain; Region: Cupin_2; pfam07883 550542004290 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 550542004291 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 550542004292 YCII-related domain; Region: YCII; pfam03795 550542004293 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 550542004294 Transcriptional regulator [Transcription]; Region: IclR; COG1414 550542004295 Bacterial transcriptional regulator; Region: IclR; pfam01614 550542004296 Domain of unknown function (DUF955); Region: DUF955; cl01076 550542004297 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 550542004298 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 550542004299 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 550542004300 siderophore binding site; other site 550542004301 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 550542004302 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 550542004303 ABC-ATPase subunit interface; other site 550542004304 dimer interface [polypeptide binding]; other site 550542004305 putative PBP binding regions; other site 550542004306 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 550542004307 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 550542004308 ABC-ATPase subunit interface; other site 550542004309 dimer interface [polypeptide binding]; other site 550542004310 putative PBP binding regions; other site 550542004311 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 550542004312 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 550542004313 Walker A/P-loop; other site 550542004314 ATP binding site [chemical binding]; other site 550542004315 Q-loop/lid; other site 550542004316 ABC transporter signature motif; other site 550542004317 Walker B; other site 550542004318 D-loop; other site 550542004319 H-loop/switch region; other site 550542004320 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 550542004321 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 550542004322 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 550542004323 PAS domain S-box; Region: sensory_box; TIGR00229 550542004324 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 550542004325 heme pocket [chemical binding]; other site 550542004326 putative active site [active] 550542004327 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550542004328 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550542004329 metal binding site [ion binding]; metal-binding site 550542004330 active site 550542004331 I-site; other site 550542004332 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 550542004333 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550542004334 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 550542004335 Coenzyme A binding pocket [chemical binding]; other site 550542004336 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 550542004337 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 550542004338 catalytic core [active] 550542004339 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 550542004340 Nucleoside recognition; Region: Gate; pfam07670 550542004341 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 550542004342 Nucleoside recognition; Region: Gate; pfam07670 550542004343 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 550542004344 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 550542004345 G1 box; other site 550542004346 GTP/Mg2+ binding site [chemical binding]; other site 550542004347 Switch I region; other site 550542004348 G2 box; other site 550542004349 G3 box; other site 550542004350 Switch II region; other site 550542004351 G4 box; other site 550542004352 G5 box; other site 550542004353 FeoA domain; Region: FeoA; pfam04023 550542004354 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 550542004355 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 550542004356 acyl-activating enzyme (AAE) consensus motif; other site 550542004357 putative AMP binding site [chemical binding]; other site 550542004358 putative active site [active] 550542004359 putative CoA binding site [chemical binding]; other site 550542004360 GAF domain; Region: GAF; cl17456 550542004361 GAF domain; Region: GAF_2; pfam13185 550542004362 GAF domain; Region: GAF_2; pfam13185 550542004363 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 550542004364 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 550542004365 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 550542004366 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 550542004367 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 550542004368 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 550542004369 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 550542004370 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 550542004371 substrate binding site [chemical binding]; other site 550542004372 oxyanion hole (OAH) forming residues; other site 550542004373 trimer interface [polypeptide binding]; other site 550542004374 benzoate transport; Region: 2A0115; TIGR00895 550542004375 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 550542004376 putative substrate translocation pore; other site 550542004377 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 550542004378 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 550542004379 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 550542004380 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 550542004381 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 550542004382 acyl-activating enzyme (AAE) consensus motif; other site 550542004383 acyl-activating enzyme (AAE) consensus motif; other site 550542004384 putative AMP binding site [chemical binding]; other site 550542004385 putative active site [active] 550542004386 putative CoA binding site [chemical binding]; other site 550542004387 putative acyltransferase; Provisional; Region: PRK05790 550542004388 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 550542004389 dimer interface [polypeptide binding]; other site 550542004390 active site 550542004391 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 550542004392 Transcriptional regulator [Transcription]; Region: IclR; COG1414 550542004393 Bacterial transcriptional regulator; Region: IclR; pfam01614 550542004394 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 550542004395 Cupin domain; Region: Cupin_2; pfam07883 550542004396 Cupin domain; Region: Cupin_2; pfam07883 550542004397 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 550542004398 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 550542004399 acyl-activating enzyme (AAE) consensus motif; other site 550542004400 putative AMP binding site [chemical binding]; other site 550542004401 putative active site [active] 550542004402 putative CoA binding site [chemical binding]; other site 550542004403 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 550542004404 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 550542004405 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 550542004406 putative substrate translocation pore; other site 550542004407 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 550542004408 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 550542004409 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 550542004410 Amidohydrolase; Region: Amidohydro_2; pfam04909 550542004411 Transcriptional regulator [Transcription]; Region: IclR; COG1414 550542004412 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 550542004413 putative DNA binding site [nucleotide binding]; other site 550542004414 putative Zn2+ binding site [ion binding]; other site 550542004415 Bacterial transcriptional regulator; Region: IclR; pfam01614 550542004416 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 550542004417 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 550542004418 NAD binding site [chemical binding]; other site 550542004419 catalytic residues [active] 550542004420 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 550542004421 acetaldehyde dehydrogenase; Validated; Region: PRK08300 550542004422 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 550542004423 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 550542004424 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 550542004425 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 550542004426 active site 550542004427 catalytic residues [active] 550542004428 metal binding site [ion binding]; metal-binding site 550542004429 DmpG-like communication domain; Region: DmpG_comm; pfam07836 550542004430 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 550542004431 4-oxalocrotonate tautomerase; Provisional; Region: PRK01964 550542004432 active site 1 [active] 550542004433 dimer interface [polypeptide binding]; other site 550542004434 hexamer interface [polypeptide binding]; other site 550542004435 active site 2 [active] 550542004436 Class III extradiol dioxygenases with similarity to homoprotocatechuate 2,3-dioxygenase, which catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD_like; cd07362 550542004437 putative active site [active] 550542004438 putative metal binding site [ion binding]; other site 550542004439 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 550542004440 Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; Region: PBP1_aromatic_compounds_like; cd06332 550542004441 putative ligand binding site [chemical binding]; other site 550542004442 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550542004443 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 550542004444 TM-ABC transporter signature motif; other site 550542004445 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550542004446 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 550542004447 TM-ABC transporter signature motif; other site 550542004448 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 550542004449 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 550542004450 Walker A/P-loop; other site 550542004451 ATP binding site [chemical binding]; other site 550542004452 Q-loop/lid; other site 550542004453 ABC transporter signature motif; other site 550542004454 Walker B; other site 550542004455 D-loop; other site 550542004456 H-loop/switch region; other site 550542004457 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 550542004458 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 550542004459 Walker A/P-loop; other site 550542004460 ATP binding site [chemical binding]; other site 550542004461 Q-loop/lid; other site 550542004462 ABC transporter signature motif; other site 550542004463 Walker B; other site 550542004464 D-loop; other site 550542004465 H-loop/switch region; other site 550542004466 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 550542004467 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 550542004468 NAD(P) binding site [chemical binding]; other site 550542004469 catalytic residues [active] 550542004470 Transcriptional regulator [Transcription]; Region: IclR; COG1414 550542004471 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 550542004472 putative DNA binding site [nucleotide binding]; other site 550542004473 putative Zn2+ binding site [ion binding]; other site 550542004474 Bacterial transcriptional regulator; Region: IclR; pfam01614 550542004475 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 550542004476 dimerization interface [polypeptide binding]; other site 550542004477 Transcriptional regulator [Transcription]; Region: IclR; COG1414 550542004478 putative DNA binding site [nucleotide binding]; other site 550542004479 putative Zn2+ binding site [ion binding]; other site 550542004480 Bacterial transcriptional regulator; Region: IclR; pfam01614 550542004481 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 550542004482 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 550542004483 acyl-activating enzyme (AAE) consensus motif; other site 550542004484 AMP binding site [chemical binding]; other site 550542004485 active site 550542004486 CoA binding site [chemical binding]; other site 550542004487 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 550542004488 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 550542004489 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 550542004490 active site 550542004491 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 550542004492 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 550542004493 DinB superfamily; Region: DinB_2; pfam12867 550542004494 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 550542004495 Cupin domain; Region: Cupin_2; pfam07883 550542004496 Cupin domain; Region: Cupin_2; pfam07883 550542004497 benzoate transport; Region: 2A0115; TIGR00895 550542004498 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 550542004499 putative substrate translocation pore; other site 550542004500 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 550542004501 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 550542004502 ATP-binding cassette domain of an uncharacterized transporter similar in sequence to NatA; Region: ABC_NatA_like; cd03267 550542004503 Walker A/P-loop; other site 550542004504 ATP binding site [chemical binding]; other site 550542004505 Q-loop/lid; other site 550542004506 ABC transporter signature motif; other site 550542004507 Walker B; other site 550542004508 D-loop; other site 550542004509 H-loop/switch region; other site 550542004510 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 550542004511 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 550542004512 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 550542004513 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 550542004514 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 550542004515 DNA binding residues [nucleotide binding] 550542004516 putative dimer interface [polypeptide binding]; other site 550542004517 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 550542004518 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 550542004519 acyl-activating enzyme (AAE) consensus motif; other site 550542004520 putative AMP binding site [chemical binding]; other site 550542004521 putative active site [active] 550542004522 putative CoA binding site [chemical binding]; other site 550542004523 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 550542004524 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550542004525 active site 550542004526 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 550542004527 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 550542004528 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 550542004529 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 550542004530 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 550542004531 active site 550542004532 phosphorylation site [posttranslational modification] 550542004533 intermolecular recognition site; other site 550542004534 dimerization interface [polypeptide binding]; other site 550542004535 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550542004536 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550542004537 metal binding site [ion binding]; metal-binding site 550542004538 active site 550542004539 I-site; other site 550542004540 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 550542004541 Response regulator receiver domain; Region: Response_reg; pfam00072 550542004542 active site 550542004543 phosphorylation site [posttranslational modification] 550542004544 intermolecular recognition site; other site 550542004545 dimerization interface [polypeptide binding]; other site 550542004546 Uncharacterized conserved protein [Function unknown]; Region: COG2135 550542004547 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 550542004548 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 550542004549 Uncharacterized conserved protein [Function unknown]; Region: COG0062 550542004550 putative carbohydrate kinase; Provisional; Region: PRK10565 550542004551 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 550542004552 putative substrate binding site [chemical binding]; other site 550542004553 putative ATP binding site [chemical binding]; other site 550542004554 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550542004555 Coenzyme A binding pocket [chemical binding]; other site 550542004556 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 550542004557 Transcriptional regulator [Transcription]; Region: IclR; COG1414 550542004558 Bacterial transcriptional regulator; Region: IclR; pfam01614 550542004559 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 550542004560 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 550542004561 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 550542004562 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 550542004563 putative active site [active] 550542004564 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 550542004565 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 550542004566 motif II; other site 550542004567 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 550542004568 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 550542004569 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 550542004570 acyl-activating enzyme (AAE) consensus motif; other site 550542004571 putative AMP binding site [chemical binding]; other site 550542004572 putative active site [active] 550542004573 putative CoA binding site [chemical binding]; other site 550542004574 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 550542004575 active site 550542004576 substrate binding pocket [chemical binding]; other site 550542004577 homodimer interaction site [polypeptide binding]; other site 550542004578 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 550542004579 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 550542004580 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 550542004581 Ligand binding site; other site 550542004582 Putative Catalytic site; other site 550542004583 DXD motif; other site 550542004584 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 550542004585 substrate binding site [chemical binding]; other site 550542004586 multimerization interface [polypeptide binding]; other site 550542004587 ATP binding site [chemical binding]; other site 550542004588 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 550542004589 dimer interface [polypeptide binding]; other site 550542004590 substrate binding site [chemical binding]; other site 550542004591 ATP binding site [chemical binding]; other site 550542004592 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 550542004593 thiamine phosphate binding site [chemical binding]; other site 550542004594 active site 550542004595 pyrophosphate binding site [ion binding]; other site 550542004596 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 550542004597 Acyltransferase family; Region: Acyl_transf_3; pfam01757 550542004598 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 550542004599 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542004600 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542004601 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542004602 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542004603 small acid-soluble spore protein, H-type; Region: SASP_H; TIGR02861 550542004604 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 550542004605 Uncharacterized conserved protein [Function unknown]; Region: COG1284 550542004606 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 550542004607 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 550542004608 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 550542004609 active site 550542004610 catalytic triad [active] 550542004611 Coat F domain; Region: Coat_F; pfam07875 550542004612 Domain of unknown function (DUF892); Region: DUF892; cl17410 550542004613 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 550542004614 Histidine kinase N terminal; Region: HisK_N; pfam09385 550542004615 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 550542004616 dimer interface [polypeptide binding]; other site 550542004617 phosphorylation site [posttranslational modification] 550542004618 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 550542004619 ATP binding site [chemical binding]; other site 550542004620 Mg2+ binding site [ion binding]; other site 550542004621 G-X-G motif; other site 550542004622 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 550542004623 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 550542004624 dimer interface [polypeptide binding]; other site 550542004625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542004626 catalytic residue [active] 550542004627 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 550542004628 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 550542004629 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 550542004630 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 550542004631 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 550542004632 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 550542004633 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 550542004634 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 550542004635 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 550542004636 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 550542004637 FAD binding domain; Region: FAD_binding_4; pfam01565 550542004638 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 550542004639 Cysteine-rich domain; Region: CCG; pfam02754 550542004640 Cysteine-rich domain; Region: CCG; pfam02754 550542004641 FAD binding domain; Region: FAD_binding_4; pfam01565 550542004642 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 550542004643 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 550542004644 active site 550542004645 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 550542004646 Malic enzyme, N-terminal domain; Region: malic; pfam00390 550542004647 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 550542004648 putative NAD(P) binding site [chemical binding]; other site 550542004649 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 550542004650 Transcriptional regulator [Transcription]; Region: IclR; COG1414 550542004651 Bacterial transcriptional regulator; Region: IclR; pfam01614 550542004652 Probable transposase; Region: OrfB_IS605; pfam01385 550542004653 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 550542004654 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 550542004655 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 550542004656 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 550542004657 ATP binding site [chemical binding]; other site 550542004658 putative Mg++ binding site [ion binding]; other site 550542004659 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 550542004660 nucleotide binding region [chemical binding]; other site 550542004661 ATP-binding site [chemical binding]; other site 550542004662 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 550542004663 RNase_H superfamily; Region: RNase_H_2; pfam13482 550542004664 active site 550542004665 substrate binding site [chemical binding]; other site 550542004666 DDE superfamily endonuclease; Region: DDE_5; cl17874 550542004667 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542004668 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 550542004669 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 550542004670 cell division protein GpsB; Provisional; Region: PRK14127 550542004671 DivIVA domain; Region: DivI1A_domain; TIGR03544 550542004672 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 550542004673 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 550542004674 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 550542004675 S-adenosylmethionine binding site [chemical binding]; other site 550542004676 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 550542004677 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 550542004678 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 550542004679 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 550542004680 active site 550542004681 Zn binding site [ion binding]; other site 550542004682 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 550542004683 D-pathway; other site 550542004684 Low-spin heme binding site [chemical binding]; other site 550542004685 Putative water exit pathway; other site 550542004686 Binuclear center (active site) [active] 550542004687 K-pathway; other site 550542004688 Putative proton exit pathway; other site 550542004689 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 550542004690 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 550542004691 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550542004692 active site 550542004693 xanthine permease; Region: pbuX; TIGR03173 550542004694 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 550542004695 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 550542004696 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 550542004697 malonyl-CoA binding site [chemical binding]; other site 550542004698 dimer interface [polypeptide binding]; other site 550542004699 active site 550542004700 product binding site; other site 550542004701 Phospholipid methyltransferase; Region: PEMT; cl17370 550542004702 Protein of unknown function, DUF258; Region: DUF258; pfam03193 550542004703 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 550542004704 Dynamin family; Region: Dynamin_N; pfam00350 550542004705 G1 box; other site 550542004706 GTP/Mg2+ binding site [chemical binding]; other site 550542004707 G2 box; other site 550542004708 Switch I region; other site 550542004709 G3 box; other site 550542004710 Switch II region; other site 550542004711 G4 box; other site 550542004712 G5 box; other site 550542004713 Dynamin family; Region: Dynamin_N; pfam00350 550542004714 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 550542004715 G3 box; other site 550542004716 Switch II region; other site 550542004717 GTP/Mg2+ binding site [chemical binding]; other site 550542004718 G4 box; other site 550542004719 G5 box; other site 550542004720 Protein of unknown function (DUF2533); Region: DUF2533; pfam10752 550542004721 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 550542004722 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 550542004723 active site residue [active] 550542004724 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 550542004725 active site residue [active] 550542004726 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 550542004727 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 550542004728 catalytic residues [active] 550542004729 acid-soluble spore protein N; Provisional; Region: sspN; PRK09398 550542004730 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 550542004731 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 550542004732 active site 550542004733 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 550542004734 CoenzymeA binding site [chemical binding]; other site 550542004735 subunit interaction site [polypeptide binding]; other site 550542004736 PHB binding site; other site 550542004737 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4841 550542004738 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 550542004739 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 550542004740 Cl binding site [ion binding]; other site 550542004741 oligomer interface [polypeptide binding]; other site 550542004742 Protein of unknown function (DUF502); Region: DUF502; cl01107 550542004743 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 550542004744 hydroxyglutarate oxidase; Provisional; Region: PRK11728 550542004745 biotin synthase; Validated; Region: PRK06256 550542004746 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 550542004747 FeS/SAM binding site; other site 550542004748 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 550542004749 hypothetical protein; Provisional; Region: PRK13672 550542004750 YozD-like protein; Region: YozD; pfam14162 550542004751 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 550542004752 YodL-like; Region: YodL; pfam14191 550542004753 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 550542004754 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 550542004755 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 550542004756 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 550542004757 Methyltransferase domain; Region: Methyltransf_31; pfam13847 550542004758 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 550542004759 S-adenosylmethionine binding site [chemical binding]; other site 550542004760 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 550542004761 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 550542004762 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 550542004763 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 550542004764 oligomer interface [polypeptide binding]; other site 550542004765 Predicted permeases [General function prediction only]; Region: RarD; COG2962 550542004766 EamA-like transporter family; Region: EamA; pfam00892 550542004767 Uncharacterized conserved protein [Function unknown]; Region: COG3342 550542004768 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 550542004769 Putative peptidoglycan binding domain; Region: PG_binding_2; pfam08823 550542004770 multidrug efflux protein; Reviewed; Region: PRK01766 550542004771 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 550542004772 cation binding site [ion binding]; other site 550542004773 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 550542004774 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 550542004775 putative active site [active] 550542004776 heme pocket [chemical binding]; other site 550542004777 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 550542004778 dimer interface [polypeptide binding]; other site 550542004779 phosphorylation site [posttranslational modification] 550542004780 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 550542004781 ATP binding site [chemical binding]; other site 550542004782 Mg2+ binding site [ion binding]; other site 550542004783 G-X-G motif; other site 550542004784 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 550542004785 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 550542004786 threonine dehydratase; Provisional; Region: PRK08198 550542004787 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 550542004788 tetramer interface [polypeptide binding]; other site 550542004789 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542004790 catalytic residue [active] 550542004791 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 550542004792 Predicted acetyltransferase [General function prediction only]; Region: COG3393 550542004793 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 550542004794 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550542004795 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550542004796 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 550542004797 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550542004798 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 550542004799 active site 550542004800 AMP-binding domain protein; Validated; Region: PRK08315 550542004801 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 550542004802 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 550542004803 acyl-activating enzyme (AAE) consensus motif; other site 550542004804 putative AMP binding site [chemical binding]; other site 550542004805 putative active site [active] 550542004806 putative CoA binding site [chemical binding]; other site 550542004807 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 550542004808 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 550542004809 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 550542004810 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 550542004811 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 550542004812 carboxyltransferase (CT) interaction site; other site 550542004813 biotinylation site [posttranslational modification]; other site 550542004814 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 550542004815 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 550542004816 active site 550542004817 catalytic residues [active] 550542004818 metal binding site [ion binding]; metal-binding site 550542004819 enoyl-CoA hydratase; Provisional; Region: PRK07657 550542004820 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 550542004821 substrate binding site [chemical binding]; other site 550542004822 oxyanion hole (OAH) forming residues; other site 550542004823 trimer interface [polypeptide binding]; other site 550542004824 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 550542004825 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 550542004826 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 550542004827 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 550542004828 MarR family; Region: MarR; pfam01047 550542004829 HlyD family secretion protein; Region: HlyD_3; pfam13437 550542004830 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 550542004831 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 550542004832 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 550542004833 putative substrate translocation pore; other site 550542004834 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 550542004835 Protein of unknown function (DUF2639); Region: DUF2639; pfam11121 550542004836 NETI protein; Region: NETI; pfam14044 550542004837 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550542004838 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 550542004839 dimer interface [polypeptide binding]; other site 550542004840 phosphorylation site [posttranslational modification] 550542004841 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 550542004842 ATP binding site [chemical binding]; other site 550542004843 Mg2+ binding site [ion binding]; other site 550542004844 G-X-G motif; other site 550542004845 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 550542004846 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 550542004847 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 550542004848 Spore germination protein; Region: Spore_permease; cl17796 550542004849 Predicted membrane protein [Function unknown]; Region: COG2323 550542004850 Predicted transcriptional regulators [Transcription]; Region: COG1725 550542004851 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550542004852 DNA-binding site [nucleotide binding]; DNA binding site 550542004853 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 550542004854 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 550542004855 Walker A/P-loop; other site 550542004856 ATP binding site [chemical binding]; other site 550542004857 Q-loop/lid; other site 550542004858 ABC transporter signature motif; other site 550542004859 Walker B; other site 550542004860 D-loop; other site 550542004861 H-loop/switch region; other site 550542004862 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 550542004863 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 550542004864 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 550542004865 Spore germination protein; Region: Spore_permease; pfam03845 550542004866 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 550542004867 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 550542004868 putative active site [active] 550542004869 heme pocket [chemical binding]; other site 550542004870 PAS domain; Region: PAS; smart00091 550542004871 putative active site [active] 550542004872 heme pocket [chemical binding]; other site 550542004873 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 550542004874 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 550542004875 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 550542004876 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 550542004877 anti sigma factor interaction site; other site 550542004878 regulatory phosphorylation site [posttranslational modification]; other site 550542004879 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 550542004880 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 550542004881 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550542004882 Walker A/P-loop; other site 550542004883 ATP binding site [chemical binding]; other site 550542004884 Q-loop/lid; other site 550542004885 ABC transporter signature motif; other site 550542004886 Walker B; other site 550542004887 D-loop; other site 550542004888 H-loop/switch region; other site 550542004889 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 550542004890 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 550542004891 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 550542004892 Walker A/P-loop; other site 550542004893 ATP binding site [chemical binding]; other site 550542004894 Q-loop/lid; other site 550542004895 ABC transporter signature motif; other site 550542004896 Walker B; other site 550542004897 D-loop; other site 550542004898 H-loop/switch region; other site 550542004899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 550542004900 MOSC domain; Region: MOSC; pfam03473 550542004901 3-alpha domain; Region: 3-alpha; pfam03475 550542004902 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 550542004903 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 550542004904 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 550542004905 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 550542004906 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 550542004907 putative catalytic residue [active] 550542004908 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 550542004909 putative active site pocket [active] 550542004910 dimerization interface [polypeptide binding]; other site 550542004911 putative catalytic residue [active] 550542004912 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 550542004913 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 550542004914 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 550542004915 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 550542004916 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550542004917 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 550542004918 active site 550542004919 catalytic triad [active] 550542004920 oxyanion hole [active] 550542004921 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 550542004922 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550542004923 Walker A/P-loop; other site 550542004924 ATP binding site [chemical binding]; other site 550542004925 Q-loop/lid; other site 550542004926 ABC transporter signature motif; other site 550542004927 Walker B; other site 550542004928 D-loop; other site 550542004929 H-loop/switch region; other site 550542004930 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 550542004931 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 550542004932 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 550542004933 PemK-like protein; Region: PemK; cl00995 550542004934 Pirin-related protein [General function prediction only]; Region: COG1741 550542004935 Pirin; Region: Pirin; pfam02678 550542004936 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 550542004937 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 550542004938 dimer interface [polypeptide binding]; other site 550542004939 FMN binding site [chemical binding]; other site 550542004940 NADPH bind site [chemical binding]; other site 550542004941 NAD-dependent deacetylase; Provisional; Region: PRK00481 550542004942 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 550542004943 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550542004944 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 550542004945 active site 550542004946 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 550542004947 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 550542004948 NAD(P) binding site [chemical binding]; other site 550542004949 homotetramer interface [polypeptide binding]; other site 550542004950 homodimer interface [polypeptide binding]; other site 550542004951 active site 550542004952 (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 550542004953 active site 550542004954 catalytic site [active] 550542004955 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 550542004956 active site 550542004957 catalytic site [active] 550542004958 putative acyltransferase; Provisional; Region: PRK05790 550542004959 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 550542004960 dimer interface [polypeptide binding]; other site 550542004961 active site 550542004962 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550542004963 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550542004964 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550542004965 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 550542004966 TM-ABC transporter signature motif; other site 550542004967 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550542004968 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 550542004969 TM-ABC transporter signature motif; other site 550542004970 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 550542004971 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 550542004972 Walker A/P-loop; other site 550542004973 ATP binding site [chemical binding]; other site 550542004974 Q-loop/lid; other site 550542004975 ABC transporter signature motif; other site 550542004976 Walker B; other site 550542004977 D-loop; other site 550542004978 H-loop/switch region; other site 550542004979 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 550542004980 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 550542004981 Walker A/P-loop; other site 550542004982 ATP binding site [chemical binding]; other site 550542004983 Q-loop/lid; other site 550542004984 ABC transporter signature motif; other site 550542004985 Walker B; other site 550542004986 D-loop; other site 550542004987 H-loop/switch region; other site 550542004988 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 550542004989 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 550542004990 putative ligand binding site [chemical binding]; other site 550542004991 OsmC-like protein; Region: OsmC; pfam02566 550542004992 QueT transporter; Region: QueT; pfam06177 550542004993 Protein of unknown function, DUF606; Region: DUF606; pfam04657 550542004994 Predicted membrane protein [Function unknown]; Region: COG1511 550542004995 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 550542004996 Predicted membrane protein [Function unknown]; Region: COG1511 550542004997 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 550542004998 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 550542004999 active site 550542005000 dimer interface [polypeptide binding]; other site 550542005001 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 550542005002 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 550542005003 Walker A/P-loop; other site 550542005004 ATP binding site [chemical binding]; other site 550542005005 Q-loop/lid; other site 550542005006 ABC transporter signature motif; other site 550542005007 Walker B; other site 550542005008 D-loop; other site 550542005009 H-loop/switch region; other site 550542005010 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 550542005011 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 550542005012 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 550542005013 classical (c) SDRs; Region: SDR_c; cd05233 550542005014 NAD(P) binding site [chemical binding]; other site 550542005015 active site 550542005016 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 550542005017 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550542005018 NAD(P) binding site [chemical binding]; other site 550542005019 active site 550542005020 enoyl-CoA hydratase; Provisional; Region: PRK06688 550542005021 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 550542005022 substrate binding site [chemical binding]; other site 550542005023 oxyanion hole (OAH) forming residues; other site 550542005024 trimer interface [polypeptide binding]; other site 550542005025 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 550542005026 Catalytic domain of Protein Kinases; Region: PKc; cd00180 550542005027 active site 550542005028 ATP binding site [chemical binding]; other site 550542005029 substrate binding site [chemical binding]; other site 550542005030 activation loop (A-loop); other site 550542005031 DNA topoisomerase III; Provisional; Region: PRK07726 550542005032 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 550542005033 active site 550542005034 putative interdomain interaction site [polypeptide binding]; other site 550542005035 putative metal-binding site [ion binding]; other site 550542005036 putative nucleotide binding site [chemical binding]; other site 550542005037 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 550542005038 domain I; other site 550542005039 DNA binding groove [nucleotide binding] 550542005040 phosphate binding site [ion binding]; other site 550542005041 domain II; other site 550542005042 domain III; other site 550542005043 nucleotide binding site [chemical binding]; other site 550542005044 catalytic site [active] 550542005045 domain IV; other site 550542005046 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 550542005047 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550542005048 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 550542005049 dimerization interface [polypeptide binding]; other site 550542005050 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 550542005051 dimer interface [polypeptide binding]; other site 550542005052 phosphorylation site [posttranslational modification] 550542005053 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 550542005054 ATP binding site [chemical binding]; other site 550542005055 Mg2+ binding site [ion binding]; other site 550542005056 G-X-G motif; other site 550542005057 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550542005058 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 550542005059 active site 550542005060 phosphorylation site [posttranslational modification] 550542005061 intermolecular recognition site; other site 550542005062 dimerization interface [polypeptide binding]; other site 550542005063 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 550542005064 DNA binding site [nucleotide binding] 550542005065 Uncharacterized conserved protein [Function unknown]; Region: COG0398 550542005066 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 550542005067 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 550542005068 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 550542005069 Uncharacterized conserved protein [Function unknown]; Region: COG3402 550542005070 Predicted membrane protein [Function unknown]; Region: COG3428 550542005071 Bacterial PH domain; Region: DUF304; pfam03703 550542005072 Bacterial PH domain; Region: DUF304; pfam03703 550542005073 Bacterial PH domain; Region: DUF304; pfam03703 550542005074 LysE type translocator; Region: LysE; cl00565 550542005075 DNA polymerase IV; Validated; Region: PRK01810 550542005076 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 550542005077 active site 550542005078 DNA binding site [nucleotide binding] 550542005079 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 550542005080 H+ Antiporter protein; Region: 2A0121; TIGR00900 550542005081 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 550542005082 putative substrate translocation pore; other site 550542005083 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 550542005084 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 550542005085 dimer interface [polypeptide binding]; other site 550542005086 active site 550542005087 heme binding site [chemical binding]; other site 550542005088 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 550542005089 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 550542005090 DHH family; Region: DHH; pfam01368 550542005091 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 550542005092 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 550542005093 metal ion-dependent adhesion site (MIDAS); other site 550542005094 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 550542005095 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 550542005096 Walker A motif; other site 550542005097 ATP binding site [chemical binding]; other site 550542005098 Walker B motif; other site 550542005099 arginine finger; other site 550542005100 Replication terminator protein; Region: RTP; pfam02334 550542005101 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 550542005102 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 550542005103 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 550542005104 putative active site [active] 550542005105 putative substrate binding site [chemical binding]; other site 550542005106 putative cosubstrate binding site; other site 550542005107 catalytic site [active] 550542005108 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 550542005109 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 550542005110 heme-binding site [chemical binding]; other site 550542005111 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 550542005112 FAD binding pocket [chemical binding]; other site 550542005113 FAD binding motif [chemical binding]; other site 550542005114 phosphate binding motif [ion binding]; other site 550542005115 beta-alpha-beta structure motif; other site 550542005116 NAD binding pocket [chemical binding]; other site 550542005117 Heme binding pocket [chemical binding]; other site 550542005118 Transcriptional regulator; Region: Rrf2; cl17282 550542005119 Predicted transcriptional regulator [Transcription]; Region: COG1959 550542005120 spermidine synthase; Provisional; Region: PRK00811 550542005121 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 550542005122 S-adenosylmethionine binding site [chemical binding]; other site 550542005123 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550542005124 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 550542005125 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 550542005126 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 550542005127 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 550542005128 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550542005129 catalytic residue [active] 550542005130 Probable transposase; Region: OrfB_IS605; pfam01385 550542005131 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 550542005132 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 550542005133 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 550542005134 active site 550542005135 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 550542005136 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 550542005137 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550542005138 DNA-binding site [nucleotide binding]; DNA binding site 550542005139 UTRA domain; Region: UTRA; pfam07702 550542005140 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 550542005141 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 550542005142 Ca binding site [ion binding]; other site 550542005143 active site 550542005144 catalytic site [active] 550542005145 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 550542005146 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 550542005147 active site turn [active] 550542005148 phosphorylation site [posttranslational modification] 550542005149 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 550542005150 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 550542005151 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg1; cd04764 550542005152 DNA binding residues [nucleotide binding] 550542005153 PilZ domain; Region: PilZ; pfam07238 550542005154 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 550542005155 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 550542005156 CAP-like domain; other site 550542005157 active site 550542005158 primary dimer interface [polypeptide binding]; other site 550542005159 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550542005160 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550542005161 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550542005162 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 550542005163 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 550542005164 ATP binding site [chemical binding]; other site 550542005165 Mg2+ binding site [ion binding]; other site 550542005166 G-X-G motif; other site 550542005167 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 550542005168 anchoring element; other site 550542005169 dimer interface [polypeptide binding]; other site 550542005170 ATP binding site [chemical binding]; other site 550542005171 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 550542005172 active site 550542005173 putative metal-binding site [ion binding]; other site 550542005174 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 550542005175 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 550542005176 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 550542005177 ABC1 family; Region: ABC1; pfam03109 550542005178 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 550542005179 active site 550542005180 ATP binding site [chemical binding]; other site 550542005181 Uncharacterized conserved protein [Function unknown]; Region: COG3937 550542005182 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550542005183 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 550542005184 metal-binding site [ion binding] 550542005185 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 550542005186 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 550542005187 putative substrate binding pocket [chemical binding]; other site 550542005188 AC domain interface; other site 550542005189 catalytic triad [active] 550542005190 AB domain interface; other site 550542005191 interchain disulfide; other site 550542005192 Predicted membrane protein [Function unknown]; Region: COG3817 550542005193 Protein of unknown function (DUF979); Region: DUF979; pfam06166 550542005194 Protein of unknown function (DUF969); Region: DUF969; pfam06149 550542005195 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 550542005196 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 550542005197 Moco binding site; other site 550542005198 metal coordination site [ion binding]; other site 550542005199 Predicted membrane protein [Function unknown]; Region: COG3601 550542005200 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 550542005201 threonine synthase; Validated; Region: PRK08197 550542005202 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 550542005203 homodimer interface [polypeptide binding]; other site 550542005204 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542005205 catalytic residue [active] 550542005206 peptidase T; Region: peptidase-T; TIGR01882 550542005207 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 550542005208 metal binding site [ion binding]; metal-binding site 550542005209 dimer interface [polypeptide binding]; other site 550542005210 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 550542005211 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 550542005212 Nitrogen regulatory protein P-II; Region: P-II; smart00938 550542005213 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 550542005214 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 550542005215 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 550542005216 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 550542005217 S-adenosylmethionine binding site [chemical binding]; other site 550542005218 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 550542005219 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 550542005220 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 550542005221 active site 550542005222 catalytic triad [active] 550542005223 oxyanion hole [active] 550542005224 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 550542005225 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 550542005226 Cu(I) binding site [ion binding]; other site 550542005227 EDD domain protein, DegV family; Region: DegV; TIGR00762 550542005228 Protein of unknown function (DUF2535); Region: DUF2535; pfam10751 550542005229 threonine dehydratase; Validated; Region: PRK08639 550542005230 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 550542005231 tetramer interface [polypeptide binding]; other site 550542005232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542005233 catalytic residue [active] 550542005234 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 550542005235 putative Ile/Val binding site [chemical binding]; other site 550542005236 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 550542005237 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 550542005238 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 550542005239 folate binding site [chemical binding]; other site 550542005240 NADP+ binding site [chemical binding]; other site 550542005241 thymidylate synthase; Reviewed; Region: thyA; PRK01827 550542005242 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 550542005243 dimerization interface [polypeptide binding]; other site 550542005244 active site 550542005245 YpjP-like protein; Region: YpjP; pfam14005 550542005246 aspartate aminotransferase; Provisional; Region: PRK07681 550542005247 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 550542005248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542005249 homodimer interface [polypeptide binding]; other site 550542005250 catalytic residue [active] 550542005251 YuzL-like protein; Region: YuzL; pfam14115 550542005252 Disulphide isomerase; Region: Disulph_isomer; pfam06491 550542005253 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 550542005254 nudix motif; other site 550542005255 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 550542005256 Virulence factor; Region: Virulence_fact; pfam13769 550542005257 HEAT repeats; Region: HEAT_2; pfam13646 550542005258 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 550542005259 HEAT repeats; Region: HEAT_2; pfam13646 550542005260 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 550542005261 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 550542005262 catalytic residues [active] 550542005263 dimer interface [polypeptide binding]; other site 550542005264 homoserine O-succinyltransferase; Provisional; Region: PRK05368 550542005265 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 550542005266 proposed active site lysine [active] 550542005267 conserved cys residue [active] 550542005268 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 550542005269 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 550542005270 active site 550542005271 SAM binding site [chemical binding]; other site 550542005272 homodimer interface [polypeptide binding]; other site 550542005273 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 550542005274 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 550542005275 putative dimer interface [polypeptide binding]; other site 550542005276 active site pocket [active] 550542005277 putative cataytic base [active] 550542005278 cobyric acid synthase; Provisional; Region: PRK00784 550542005279 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 550542005280 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 550542005281 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 550542005282 catalytic triad [active] 550542005283 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 550542005284 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 550542005285 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 550542005286 catalytic triad [active] 550542005287 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 550542005288 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 550542005289 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 550542005290 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 550542005291 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 550542005292 active site 550542005293 SAM binding site [chemical binding]; other site 550542005294 homodimer interface [polypeptide binding]; other site 550542005295 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 550542005296 active site 550542005297 SAM binding site [chemical binding]; other site 550542005298 homodimer interface [polypeptide binding]; other site 550542005299 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 550542005300 active site 550542005301 putative homodimer interface [polypeptide binding]; other site 550542005302 SAM binding site [chemical binding]; other site 550542005303 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 550542005304 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 550542005305 S-adenosylmethionine binding site [chemical binding]; other site 550542005306 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 550542005307 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 550542005308 Precorrin-8X methylmutase; Region: CbiC; pfam02570 550542005309 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 550542005310 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 550542005311 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 550542005312 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 550542005313 putative active site [active] 550542005314 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 550542005315 putative active site [active] 550542005316 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 550542005317 active site 550542005318 SAM binding site [chemical binding]; other site 550542005319 homodimer interface [polypeptide binding]; other site 550542005320 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 550542005321 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 550542005322 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 550542005323 Walker A/P-loop; other site 550542005324 ATP binding site [chemical binding]; other site 550542005325 Q-loop/lid; other site 550542005326 ABC transporter signature motif; other site 550542005327 Walker B; other site 550542005328 D-loop; other site 550542005329 H-loop/switch region; other site 550542005330 Cobalt transport protein; Region: CbiQ; cl00463 550542005331 cobalt transport protein CbiN; Provisional; Region: PRK02898 550542005332 cobalt transport protein CbiM; Validated; Region: PRK08319 550542005333 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 550542005334 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 550542005335 dimer interface [polypeptide binding]; other site 550542005336 [2Fe-2S] cluster binding site [ion binding]; other site 550542005337 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 550542005338 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 550542005339 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 550542005340 active site 550542005341 catalytic site [active] 550542005342 DNA topoisomerase III; Provisional; Region: PRK07726 550542005343 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 550542005344 active site 550542005345 putative interdomain interaction site [polypeptide binding]; other site 550542005346 putative metal-binding site [ion binding]; other site 550542005347 putative nucleotide binding site [chemical binding]; other site 550542005348 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 550542005349 domain I; other site 550542005350 DNA binding groove [nucleotide binding] 550542005351 phosphate binding site [ion binding]; other site 550542005352 domain II; other site 550542005353 domain III; other site 550542005354 nucleotide binding site [chemical binding]; other site 550542005355 catalytic site [active] 550542005356 domain IV; other site 550542005357 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 550542005358 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 550542005359 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 550542005360 active site 550542005361 catalytic tetrad [active] 550542005362 oligoendopeptidase F; Region: pepF; TIGR00181 550542005363 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 550542005364 active site 550542005365 Zn binding site [ion binding]; other site 550542005366 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 550542005367 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 550542005368 active site 550542005369 Isochorismatase family; Region: Isochorismatase; pfam00857 550542005370 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 550542005371 catalytic triad [active] 550542005372 conserved cis-peptide bond; other site 550542005373 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 550542005374 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 550542005375 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 550542005376 putative active site [active] 550542005377 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 550542005378 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 550542005379 TPR motif; other site 550542005380 binding surface 550542005381 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 550542005382 binding surface 550542005383 TPR motif; other site 550542005384 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 550542005385 binding surface 550542005386 TPR motif; other site 550542005387 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 550542005388 TPR motif; other site 550542005389 binding surface 550542005390 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 550542005391 TPR motif; other site 550542005392 binding surface 550542005393 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 550542005394 TPR motif; other site 550542005395 binding surface 550542005396 Esterase/lipase [General function prediction only]; Region: COG1647 550542005397 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 550542005398 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 550542005399 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 550542005400 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 550542005401 [4Fe-4S] binding site [ion binding]; other site 550542005402 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 550542005403 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 550542005404 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 550542005405 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_CT_Nitrate-R-NarG-like; cd02776 550542005406 molybdopterin cofactor binding site; other site 550542005407 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 550542005408 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 550542005409 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 550542005410 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 550542005411 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 550542005412 active site 550542005413 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 550542005414 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 550542005415 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 550542005416 dimer interface [polypeptide binding]; other site 550542005417 phosphorylation site [posttranslational modification] 550542005418 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 550542005419 ATP binding site [chemical binding]; other site 550542005420 Mg2+ binding site [ion binding]; other site 550542005421 G-X-G motif; other site 550542005422 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 550542005423 active site 550542005424 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 550542005425 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 550542005426 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 550542005427 Predicted membrane protein [Function unknown]; Region: COG3689 550542005428 Predicted permeases [General function prediction only]; Region: COG0701 550542005429 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 550542005430 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 550542005431 active site 550542005432 phosphorylation site [posttranslational modification] 550542005433 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 550542005434 active site 550542005435 P-loop; other site 550542005436 phosphorylation site [posttranslational modification] 550542005437 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 550542005438 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 550542005439 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 550542005440 putative substrate binding site [chemical binding]; other site 550542005441 putative ATP binding site [chemical binding]; other site 550542005442 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 550542005443 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 550542005444 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 550542005445 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550542005446 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550542005447 metal binding site [ion binding]; metal-binding site 550542005448 active site 550542005449 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 550542005450 I-site; other site 550542005451 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550542005452 Zn2+ binding site [ion binding]; other site 550542005453 Mg2+ binding site [ion binding]; other site 550542005454 putative addiction module antidote; Region: doc_partner; TIGR02609 550542005455 Fic/DOC family; Region: Fic; cl00960 550542005456 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 550542005457 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 550542005458 G1 box; other site 550542005459 GTP/Mg2+ binding site [chemical binding]; other site 550542005460 Switch I region; other site 550542005461 G2 box; other site 550542005462 G3 box; other site 550542005463 Switch II region; other site 550542005464 G4 box; other site 550542005465 G5 box; other site 550542005466 Nucleoside recognition; Region: Gate; pfam07670 550542005467 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 550542005468 Nucleoside recognition; Region: Gate; pfam07670 550542005469 FeoA domain; Region: FeoA; pfam04023 550542005470 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 550542005471 Sodium Bile acid symporter family; Region: SBF; pfam01758 550542005472 Endonuclease I; Region: Endonuclease_1; pfam04231 550542005473 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 550542005474 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 550542005475 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 550542005476 putative active site [active] 550542005477 putative metal binding site [ion binding]; other site 550542005478 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 550542005479 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550542005480 DNA-binding site [nucleotide binding]; DNA binding site 550542005481 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 550542005482 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 550542005483 beta-galactosidase; Region: BGL; TIGR03356 550542005484 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 550542005485 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 550542005486 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 550542005487 active site 550542005488 methionine cluster; other site 550542005489 phosphorylation site [posttranslational modification] 550542005490 metal binding site [ion binding]; metal-binding site 550542005491 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 550542005492 active site 550542005493 P-loop; other site 550542005494 phosphorylation site [posttranslational modification] 550542005495 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 550542005496 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 550542005497 DNA binding residues [nucleotide binding] 550542005498 putative dimer interface [polypeptide binding]; other site 550542005499 Protein of unknown function (DUF3940); Region: DUF3940; pfam13076 550542005500 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 550542005501 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 550542005502 [4Fe-4S] binding site [ion binding]; other site 550542005503 molybdopterin cofactor binding site; other site 550542005504 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 550542005505 molybdopterin cofactor binding site; other site 550542005506 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 550542005507 [2Fe-2S] cluster binding site [ion binding]; other site 550542005508 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 550542005509 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550542005510 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550542005511 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 550542005512 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 550542005513 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 550542005514 DnaA N-terminal domain; Region: DnaA_N; pfam11638 550542005515 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 550542005516 active site 550542005517 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 550542005518 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 550542005519 putative active site [active] 550542005520 metal binding site [ion binding]; metal-binding site 550542005521 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550542005522 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 550542005523 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 550542005524 putative active site [active] 550542005525 heme pocket [chemical binding]; other site 550542005526 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 550542005527 putative active site [active] 550542005528 heme pocket [chemical binding]; other site 550542005529 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 550542005530 Walker A motif; other site 550542005531 ATP binding site [chemical binding]; other site 550542005532 Walker B motif; other site 550542005533 arginine finger; other site 550542005534 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 550542005535 Nitronate monooxygenase; Region: NMO; pfam03060 550542005536 FMN binding site [chemical binding]; other site 550542005537 substrate binding site [chemical binding]; other site 550542005538 putative catalytic residue [active] 550542005539 Probable transposase; Region: OrfB_IS605; pfam01385 550542005540 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 550542005541 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 550542005542 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 550542005543 N- and C-terminal domain interface [polypeptide binding]; other site 550542005544 D-xylulose kinase; Region: XylB; TIGR01312 550542005545 active site 550542005546 MgATP binding site [chemical binding]; other site 550542005547 catalytic site [active] 550542005548 metal binding site [ion binding]; metal-binding site 550542005549 xylulose binding site [chemical binding]; other site 550542005550 homodimer interface [polypeptide binding]; other site 550542005551 xylose isomerase; Provisional; Region: PRK05474 550542005552 xylose isomerase; Region: xylose_isom_A; TIGR02630 550542005553 DDE superfamily endonuclease; Region: DDE_5; cl17874 550542005554 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542005555 SGNH_hydrolase subfamily. SGNH hydrolases are 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...; Region: SGNH_hydrolase_like_2; cd01834 550542005556 active site 550542005557 catalytic triad [active] 550542005558 oxyanion hole [active] 550542005559 Uncharacterized conserved protein [Function unknown]; Region: COG0327 550542005560 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 550542005561 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 550542005562 Predicted integral membrane protein [Function unknown]; Region: COG5578 550542005563 D-mannonate oxidoreductase; Provisional; Region: PRK08277 550542005564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550542005565 NAD(P) binding site [chemical binding]; other site 550542005566 active site 550542005567 mannonate dehydratase; Provisional; Region: PRK03906 550542005568 mannonate dehydratase; Region: uxuA; TIGR00695 550542005569 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 550542005570 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542005571 Transcriptional regulators [Transcription]; Region: GntR; COG1802 550542005572 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550542005573 DNA-binding site [nucleotide binding]; DNA binding site 550542005574 FCD domain; Region: FCD; pfam07729 550542005575 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 550542005576 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 550542005577 active site 550542005578 intersubunit interface [polypeptide binding]; other site 550542005579 catalytic residue [active] 550542005580 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 550542005581 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 550542005582 substrate binding site [chemical binding]; other site 550542005583 ATP binding site [chemical binding]; other site 550542005584 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 550542005585 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 550542005586 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 550542005587 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 550542005588 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 550542005589 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 550542005590 dimer interface [polypeptide binding]; other site 550542005591 conserved gate region; other site 550542005592 ABC-ATPase subunit interface; other site 550542005593 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 550542005594 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 550542005595 dimer interface [polypeptide binding]; other site 550542005596 conserved gate region; other site 550542005597 putative PBP binding loops; other site 550542005598 ABC-ATPase subunit interface; other site 550542005599 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 550542005600 D-aminoacylase, C-terminal region; Region: D-aminoacyl_C; pfam07908 550542005601 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 550542005602 Glycosyl hydrolase family 52; Region: Glyco_hydro_52; pfam03512 550542005603 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 550542005604 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 550542005605 NodB motif; other site 550542005606 active site 550542005607 catalytic site [active] 550542005608 metal binding site [ion binding]; metal-binding site 550542005609 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 550542005610 active site 550542005611 catalytic residues [active] 550542005612 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 550542005613 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 550542005614 dimer interface [polypeptide binding]; other site 550542005615 conserved gate region; other site 550542005616 putative PBP binding loops; other site 550542005617 ABC-ATPase subunit interface; other site 550542005618 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 550542005619 dimer interface [polypeptide binding]; other site 550542005620 putative PBP binding loops; other site 550542005621 ABC-ATPase subunit interface; other site 550542005622 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 550542005623 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 550542005624 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 550542005625 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542005626 Response regulator receiver domain; Region: Response_reg; pfam00072 550542005627 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 550542005628 active site 550542005629 phosphorylation site [posttranslational modification] 550542005630 intermolecular recognition site; other site 550542005631 dimerization interface [polypeptide binding]; other site 550542005632 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550542005633 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 550542005634 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550542005635 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 550542005636 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 550542005637 Histidine kinase; Region: His_kinase; pfam06580 550542005638 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 550542005639 ATP binding site [chemical binding]; other site 550542005640 Mg2+ binding site [ion binding]; other site 550542005641 G-X-G motif; other site 550542005642 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 550542005643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 550542005644 Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner; Region: G1PDH; cd08175 550542005645 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 550542005646 active site 550542005647 metal binding site [ion binding]; metal-binding site 550542005648 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 550542005649 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 550542005650 active site 550542005651 motif I; other site 550542005652 motif II; other site 550542005653 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 550542005654 motif II; other site 550542005655 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 550542005656 active site 550542005657 catalytic residues [active] 550542005658 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 550542005659 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 550542005660 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 550542005661 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 550542005662 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 550542005663 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 550542005664 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 550542005665 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 550542005666 substrate binding site [chemical binding]; other site 550542005667 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 550542005668 active site 550542005669 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 550542005670 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 550542005671 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 550542005672 dimer interface [polypeptide binding]; other site 550542005673 conserved gate region; other site 550542005674 putative PBP binding loops; other site 550542005675 ABC-ATPase subunit interface; other site 550542005676 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 550542005677 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 550542005678 dimer interface [polypeptide binding]; other site 550542005679 putative PBP binding loops; other site 550542005680 ABC-ATPase subunit interface; other site 550542005681 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 550542005682 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 550542005683 Glycosyl hydrolase family 43; Region: GH43_ABN; cd08988 550542005684 substrate binding site [chemical binding]; other site 550542005685 active site 550542005686 alpha-galactosidase; Region: PLN02808; cl17638 550542005687 L-arabinose isomerase; Provisional; Region: PRK02929 550542005688 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 550542005689 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 550542005690 trimer interface [polypeptide binding]; other site 550542005691 putative substrate binding site [chemical binding]; other site 550542005692 putative metal binding site [ion binding]; other site 550542005693 ribulokinase; Provisional; Region: PRK04123 550542005694 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 550542005695 N- and C-terminal domain interface [polypeptide binding]; other site 550542005696 active site 550542005697 MgATP binding site [chemical binding]; other site 550542005698 catalytic site [active] 550542005699 metal binding site [ion binding]; metal-binding site 550542005700 carbohydrate binding site [chemical binding]; other site 550542005701 homodimer interface [polypeptide binding]; other site 550542005702 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 550542005703 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 550542005704 intersubunit interface [polypeptide binding]; other site 550542005705 active site 550542005706 Zn2+ binding site [ion binding]; other site 550542005707 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 550542005708 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550542005709 DNA-binding site [nucleotide binding]; DNA binding site 550542005710 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 550542005711 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 550542005712 putative dimerization interface [polypeptide binding]; other site 550542005713 putative ligand binding site [chemical binding]; other site 550542005714 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 550542005715 Integrase core domain; Region: rve; pfam00665 550542005716 transposase/IS protein; Provisional; Region: PRK09183 550542005717 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 550542005718 Walker A motif; other site 550542005719 ATP binding site [chemical binding]; other site 550542005720 Walker B motif; other site 550542005721 arginine finger; other site 550542005722 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 550542005723 putative substrate binding pocket [chemical binding]; other site 550542005724 AC domain interface; other site 550542005725 catalytic triad [active] 550542005726 AB domain interface; other site 550542005727 interchain disulfide; other site 550542005728 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 550542005729 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 550542005730 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 550542005731 peptide binding site [polypeptide binding]; other site 550542005732 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 550542005733 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 550542005734 Walker A/P-loop; other site 550542005735 ATP binding site [chemical binding]; other site 550542005736 Q-loop/lid; other site 550542005737 ABC transporter signature motif; other site 550542005738 Walker B; other site 550542005739 D-loop; other site 550542005740 H-loop/switch region; other site 550542005741 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 550542005742 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 550542005743 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 550542005744 Walker A/P-loop; other site 550542005745 ATP binding site [chemical binding]; other site 550542005746 Q-loop/lid; other site 550542005747 ABC transporter signature motif; other site 550542005748 Walker B; other site 550542005749 D-loop; other site 550542005750 H-loop/switch region; other site 550542005751 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 550542005752 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 550542005753 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 550542005754 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 550542005755 dimer interface [polypeptide binding]; other site 550542005756 conserved gate region; other site 550542005757 putative PBP binding loops; other site 550542005758 ABC-ATPase subunit interface; other site 550542005759 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 550542005760 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 550542005761 dimer interface [polypeptide binding]; other site 550542005762 conserved gate region; other site 550542005763 putative PBP binding loops; other site 550542005764 ABC-ATPase subunit interface; other site 550542005765 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 550542005766 SxDxEG motif; other site 550542005767 active site 550542005768 metal binding site [ion binding]; metal-binding site 550542005769 homopentamer interface [polypeptide binding]; other site 550542005770 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 550542005771 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 550542005772 putative DNA binding site [nucleotide binding]; other site 550542005773 putative Zn2+ binding site [ion binding]; other site 550542005774 AsnC family; Region: AsnC_trans_reg; pfam01037 550542005775 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 550542005776 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 550542005777 active site 550542005778 enoyl-CoA hydratase; Provisional; Region: PRK07659 550542005779 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 550542005780 substrate binding site [chemical binding]; other site 550542005781 oxyanion hole (OAH) forming residues; other site 550542005782 trimer interface [polypeptide binding]; other site 550542005783 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 550542005784 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 550542005785 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 550542005786 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 550542005787 NAD(P) binding site [chemical binding]; other site 550542005788 catalytic residues [active] 550542005789 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 550542005790 Na binding site [ion binding]; other site 550542005791 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 550542005792 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 550542005793 inhibitor-cofactor binding pocket; inhibition site 550542005794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542005795 catalytic residue [active] 550542005796 4-aminobutyrate aminotransferase; Reviewed; Region: PRK06918 550542005797 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 550542005798 inhibitor-cofactor binding pocket; inhibition site 550542005799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542005800 catalytic residue [active] 550542005801 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 550542005802 PAS domain; Region: PAS_9; pfam13426 550542005803 putative active site [active] 550542005804 heme pocket [chemical binding]; other site 550542005805 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 550542005806 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 550542005807 Walker A motif; other site 550542005808 ATP binding site [chemical binding]; other site 550542005809 Walker B motif; other site 550542005810 arginine finger; other site 550542005811 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 550542005812 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 550542005813 agmatinase; Region: agmatinase; TIGR01230 550542005814 oligomer interface [polypeptide binding]; other site 550542005815 putative active site [active] 550542005816 Mn binding site [ion binding]; other site 550542005817 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 550542005818 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 550542005819 NAD(P) binding site [chemical binding]; other site 550542005820 catalytic residues [active] 550542005821 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 550542005822 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 550542005823 Na binding site [ion binding]; other site 550542005824 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 550542005825 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 550542005826 active site 550542005827 catalytic triad [active] 550542005828 dimer interface [polypeptide binding]; other site 550542005829 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 550542005830 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 550542005831 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 550542005832 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550542005833 catalytic residue [active] 550542005834 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 550542005835 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550542005836 putative substrate translocation pore; other site 550542005837 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550542005838 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 550542005839 Coenzyme A binding pocket [chemical binding]; other site 550542005840 High-affinity nickel-transport protein; Region: NicO; cl00964 550542005841 UreD urease accessory protein; Region: UreD; cl00530 550542005842 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 550542005843 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 550542005844 UreF; Region: UreF; pfam01730 550542005845 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 550542005846 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 550542005847 dimer interface [polypeptide binding]; other site 550542005848 catalytic residues [active] 550542005849 urease subunit alpha; Reviewed; Region: ureC; PRK13207 550542005850 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 550542005851 subunit interactions [polypeptide binding]; other site 550542005852 active site 550542005853 flap region; other site 550542005854 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 550542005855 gamma-beta subunit interface [polypeptide binding]; other site 550542005856 alpha-beta subunit interface [polypeptide binding]; other site 550542005857 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 550542005858 alpha-gamma subunit interface [polypeptide binding]; other site 550542005859 beta-gamma subunit interface [polypeptide binding]; other site 550542005860 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 550542005861 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 550542005862 Walker A/P-loop; other site 550542005863 ATP binding site [chemical binding]; other site 550542005864 Q-loop/lid; other site 550542005865 ABC transporter signature motif; other site 550542005866 Walker B; other site 550542005867 D-loop; other site 550542005868 H-loop/switch region; other site 550542005869 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 550542005870 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 550542005871 Walker A/P-loop; other site 550542005872 ATP binding site [chemical binding]; other site 550542005873 Q-loop/lid; other site 550542005874 ABC transporter signature motif; other site 550542005875 Walker B; other site 550542005876 D-loop; other site 550542005877 H-loop/switch region; other site 550542005878 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550542005879 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 550542005880 TM-ABC transporter signature motif; other site 550542005881 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 550542005882 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550542005883 TM-ABC transporter signature motif; other site 550542005884 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 550542005885 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 550542005886 putative ligand binding site [chemical binding]; other site 550542005887 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550542005888 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550542005889 dimer interface [polypeptide binding]; other site 550542005890 putative CheW interface [polypeptide binding]; other site 550542005891 Cache domain; Region: Cache_1; pfam02743 550542005892 fructuronate transporter; Provisional; Region: PRK10034; cl15264 550542005893 GntP family permease; Region: GntP_permease; pfam02447 550542005894 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 550542005895 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 550542005896 N- and C-terminal domain interface [polypeptide binding]; other site 550542005897 active site 550542005898 carbohydrate binding site [chemical binding]; other site 550542005899 ATP binding site [chemical binding]; other site 550542005900 Transcriptional regulators [Transcription]; Region: PurR; COG1609 550542005901 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 550542005902 DNA binding site [nucleotide binding] 550542005903 domain linker motif; other site 550542005904 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 550542005905 putative dimerization interface [polypeptide binding]; other site 550542005906 putative ligand binding site [chemical binding]; other site 550542005907 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 550542005908 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 550542005909 Predicted permeases [General function prediction only]; Region: COG0679 550542005910 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 550542005911 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 550542005912 active site 550542005913 phosphorylation site [posttranslational modification] 550542005914 intermolecular recognition site; other site 550542005915 dimerization interface [polypeptide binding]; other site 550542005916 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 550542005917 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 550542005918 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 550542005919 putative active site [active] 550542005920 heme pocket [chemical binding]; other site 550542005921 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 550542005922 ATP binding site [chemical binding]; other site 550542005923 Mg2+ binding site [ion binding]; other site 550542005924 G-X-G motif; other site 550542005925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 550542005926 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 550542005927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 550542005928 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 550542005929 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 550542005930 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 550542005931 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 550542005932 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 550542005933 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 550542005934 active site 550542005935 phosphorylation site [posttranslational modification] 550542005936 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 550542005937 HTH domain; Region: HTH_11; pfam08279 550542005938 PRD domain; Region: PRD; pfam00874 550542005939 PRD domain; Region: PRD; pfam00874 550542005940 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 550542005941 active site 550542005942 P-loop; other site 550542005943 phosphorylation site [posttranslational modification] 550542005944 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 550542005945 active site 550542005946 phosphorylation site [posttranslational modification] 550542005947 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 550542005948 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542005949 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 550542005950 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 550542005951 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 550542005952 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 550542005953 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 550542005954 tetrameric interface [polypeptide binding]; other site 550542005955 NAD binding site [chemical binding]; other site 550542005956 catalytic residues [active] 550542005957 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 550542005958 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 550542005959 active site 550542005960 NAD binding site [chemical binding]; other site 550542005961 metal binding site [ion binding]; metal-binding site 550542005962 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 550542005963 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 550542005964 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 550542005965 Walker A motif; other site 550542005966 ATP binding site [chemical binding]; other site 550542005967 Walker B motif; other site 550542005968 arginine finger; other site 550542005969 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 550542005970 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 550542005971 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 550542005972 active site 550542005973 catalytic tetrad [active] 550542005974 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 550542005975 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 550542005976 Walker A/P-loop; other site 550542005977 ATP binding site [chemical binding]; other site 550542005978 Q-loop/lid; other site 550542005979 ABC transporter signature motif; other site 550542005980 Walker B; other site 550542005981 D-loop; other site 550542005982 H-loop/switch region; other site 550542005983 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 550542005984 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 550542005985 substrate binding pocket [chemical binding]; other site 550542005986 membrane-bound complex binding site; other site 550542005987 hinge residues; other site 550542005988 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 550542005989 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 550542005990 dimer interface [polypeptide binding]; other site 550542005991 conserved gate region; other site 550542005992 putative PBP binding loops; other site 550542005993 ABC-ATPase subunit interface; other site 550542005994 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 550542005995 dimer interface [polypeptide binding]; other site 550542005996 conserved gate region; other site 550542005997 putative PBP binding loops; other site 550542005998 ABC-ATPase subunit interface; other site 550542005999 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550542006000 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 550542006001 ATP binding site [chemical binding]; other site 550542006002 G-X-G motif; other site 550542006003 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 550542006004 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 550542006005 active site 550542006006 phosphorylation site [posttranslational modification] 550542006007 intermolecular recognition site; other site 550542006008 dimerization interface [polypeptide binding]; other site 550542006009 YcbB domain; Region: YcbB; pfam08664 550542006010 Uncharacterized conserved protein [Function unknown]; Region: COG3589 550542006011 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 550542006012 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 550542006013 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 550542006014 active site turn [active] 550542006015 phosphorylation site [posttranslational modification] 550542006016 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 550542006017 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 550542006018 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 550542006019 putative active site [active] 550542006020 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 550542006021 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 550542006022 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 550542006023 putative active site [active] 550542006024 Uncharacterized conserved protein [Function unknown]; Region: COG2353 550542006025 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 550542006026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550542006027 NAD(P) binding site [chemical binding]; other site 550542006028 active site 550542006029 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 550542006030 aromatic arch; other site 550542006031 DCoH dimer interaction site [polypeptide binding]; other site 550542006032 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 550542006033 DCoH tetramer interaction site [polypeptide binding]; other site 550542006034 substrate binding site [chemical binding]; other site 550542006035 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 550542006036 putative active site [active] 550542006037 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 550542006038 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 550542006039 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 550542006040 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 550542006041 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 550542006042 Sodium Bile acid symporter family; Region: SBF; cl17470 550542006043 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 550542006044 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 550542006045 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 550542006046 active site 550542006047 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 550542006048 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 550542006049 active site 550542006050 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 550542006051 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 550542006052 dimer interface [polypeptide binding]; other site 550542006053 acyl-activating enzyme (AAE) consensus motif; other site 550542006054 putative active site [active] 550542006055 putative AMP binding site [chemical binding]; other site 550542006056 putative CoA binding site [chemical binding]; other site 550542006057 chemical substrate binding site [chemical binding]; other site 550542006058 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 550542006059 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 550542006060 substrate binding site [chemical binding]; other site 550542006061 oxyanion hole (OAH) forming residues; other site 550542006062 trimer interface [polypeptide binding]; other site 550542006063 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 550542006064 Phenylacetic acid degradation B; Region: PaaB; cl01371 550542006065 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 550542006066 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 550542006067 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 550542006068 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550542006069 PaaX-like protein; Region: PaaX; pfam07848 550542006070 Phenylacetic acid-responsive transcriptional repressor [Transcription]; Region: PaaX; COG3327 550542006071 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 550542006072 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 550542006073 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 550542006074 NAD(P) binding site [chemical binding]; other site 550542006075 catalytic residues [active] 550542006076 Probable transposase; Region: OrfB_IS605; pfam01385 550542006077 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 550542006078 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 550542006079 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 550542006080 active site 550542006081 catalytic site [active] 550542006082 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 550542006083 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 550542006084 putative active site [active] 550542006085 putative metal binding site [ion binding]; other site 550542006086 Protein of unknown function (DUF1633); Region: DUF1633; pfam07794 550542006087 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 550542006088 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 550542006089 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 550542006090 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 550542006091 dimer interface [polypeptide binding]; other site 550542006092 conserved gate region; other site 550542006093 putative PBP binding loops; other site 550542006094 ABC-ATPase subunit interface; other site 550542006095 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 550542006096 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 550542006097 dimer interface [polypeptide binding]; other site 550542006098 conserved gate region; other site 550542006099 putative PBP binding loops; other site 550542006100 ABC-ATPase subunit interface; other site 550542006101 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 550542006102 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 550542006103 Walker A/P-loop; other site 550542006104 ATP binding site [chemical binding]; other site 550542006105 Q-loop/lid; other site 550542006106 ABC transporter signature motif; other site 550542006107 Walker B; other site 550542006108 D-loop; other site 550542006109 H-loop/switch region; other site 550542006110 TOBE domain; Region: TOBE_2; pfam08402 550542006111 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 550542006112 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 550542006113 putative substrate translocation pore; other site 550542006114 POT family; Region: PTR2; pfam00854 550542006115 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 550542006116 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 550542006117 trimer interface [polypeptide binding]; other site 550542006118 putative metal binding site [ion binding]; other site 550542006119 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 550542006120 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 550542006121 alpha subunit interface [polypeptide binding]; other site 550542006122 TPP binding site [chemical binding]; other site 550542006123 heterodimer interface [polypeptide binding]; other site 550542006124 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 550542006125 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 550542006126 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 550542006127 TPP-binding site [chemical binding]; other site 550542006128 tetramer interface [polypeptide binding]; other site 550542006129 heterodimer interface [polypeptide binding]; other site 550542006130 phosphorylation loop region [posttranslational modification] 550542006131 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 550542006132 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550542006133 Walker A/P-loop; other site 550542006134 ATP binding site [chemical binding]; other site 550542006135 Q-loop/lid; other site 550542006136 ABC transporter signature motif; other site 550542006137 Walker B; other site 550542006138 D-loop; other site 550542006139 H-loop/switch region; other site 550542006140 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550542006141 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 550542006142 TM-ABC transporter signature motif; other site 550542006143 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 550542006144 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 550542006145 zinc binding site [ion binding]; other site 550542006146 putative ligand binding site [chemical binding]; other site 550542006147 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 550542006148 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 550542006149 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 550542006150 NAD binding site [chemical binding]; other site 550542006151 Phe binding site; other site 550542006152 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 550542006153 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 550542006154 FMN binding site [chemical binding]; other site 550542006155 substrate binding site [chemical binding]; other site 550542006156 putative catalytic residue [active] 550542006157 PaaX-like protein; Region: PaaX; pfam07848 550542006158 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 550542006159 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 550542006160 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 550542006161 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 550542006162 dimer interface [polypeptide binding]; other site 550542006163 active site 550542006164 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK09260 550542006165 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 550542006166 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 550542006167 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 550542006168 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 550542006169 NAD(P) binding site [chemical binding]; other site 550542006170 catalytic residues [active] 550542006171 enoyl-CoA hydratase; Provisional; Region: PRK08140 550542006172 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 550542006173 substrate binding site [chemical binding]; other site 550542006174 oxyanion hole (OAH) forming residues; other site 550542006175 trimer interface [polypeptide binding]; other site 550542006176 enoyl-CoA hydratase; Provisional; Region: PRK05862 550542006177 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 550542006178 substrate binding site [chemical binding]; other site 550542006179 oxyanion hole (OAH) forming residues; other site 550542006180 trimer interface [polypeptide binding]; other site 550542006181 conserved hypothetical protein; Region: TIGR02118 550542006182 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 550542006183 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 550542006184 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 550542006185 Phenylacetic acid degradation B; Region: PaaB; cl01371 550542006186 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 550542006187 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 550542006188 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 550542006189 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 550542006190 acyl-activating enzyme (AAE) consensus motif; other site 550542006191 AMP binding site [chemical binding]; other site 550542006192 active site 550542006193 CoA binding site [chemical binding]; other site 550542006194 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 550542006195 gamma-glutamyl kinase; Provisional; Region: PRK05429 550542006196 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 550542006197 nucleotide binding site [chemical binding]; other site 550542006198 homotetrameric interface [polypeptide binding]; other site 550542006199 putative phosphate binding site [ion binding]; other site 550542006200 putative allosteric binding site; other site 550542006201 PUA domain; Region: PUA; pfam01472 550542006202 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 550542006203 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 550542006204 putative catalytic cysteine [active] 550542006205 Predicted membrane protein [Function unknown]; Region: COG2246 550542006206 GtrA-like protein; Region: GtrA; pfam04138 550542006207 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 550542006208 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 550542006209 Ligand binding site; other site 550542006210 Putative Catalytic site; other site 550542006211 DXD motif; other site 550542006212 phosphodiesterase; Provisional; Region: PRK12704 550542006213 shikimate kinase; Reviewed; Region: aroK; PRK00131 550542006214 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 550542006215 ADP binding site [chemical binding]; other site 550542006216 magnesium binding site [ion binding]; other site 550542006217 putative shikimate binding site; other site 550542006218 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 550542006219 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 550542006220 active site 550542006221 catalytic residue [active] 550542006222 dimer interface [polypeptide binding]; other site 550542006223 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 550542006224 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 550542006225 active site 550542006226 motif I; other site 550542006227 motif II; other site 550542006228 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 550542006229 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 550542006230 Predicted membrane protein [Function unknown]; Region: COG2510 550542006231 CobD/Cbib protein; Region: CobD_Cbib; cl00561 550542006232 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 550542006233 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 550542006234 putative di-iron ligands [ion binding]; other site 550542006235 Domain of unknown function DUF302; Region: DUF302; cl01364 550542006236 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 550542006237 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 550542006238 active site residue [active] 550542006239 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550542006240 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 550542006241 CPxP motif; other site 550542006242 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 550542006243 active site residue [active] 550542006244 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 550542006245 active site residue [active] 550542006246 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 550542006247 active site residue [active] 550542006248 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 550542006249 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 550542006250 CPxP motif; other site 550542006251 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 550542006252 putative homodimer interface [polypeptide binding]; other site 550542006253 putative homotetramer interface [polypeptide binding]; other site 550542006254 putative metal binding site [ion binding]; other site 550542006255 putative homodimer-homodimer interface [polypeptide binding]; other site 550542006256 putative allosteric switch controlling residues; other site 550542006257 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 550542006258 active site residue [active] 550542006259 Methyltransferase domain; Region: Methyltransf_31; pfam13847 550542006260 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 550542006261 S-adenosylmethionine binding site [chemical binding]; other site 550542006262 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 550542006263 active site residue [active] 550542006264 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550542006265 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 550542006266 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 550542006267 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 550542006268 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542006269 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542006270 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 550542006271 active site 550542006272 Domain of unknown function (DUF202); Region: DUF202; pfam02656 550542006273 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 550542006274 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 550542006275 catalytic residues [active] 550542006276 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 550542006277 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 550542006278 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 550542006279 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 550542006280 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550542006281 putative substrate translocation pore; other site 550542006282 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 550542006283 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 550542006284 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 550542006285 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 550542006286 active site 550542006287 phosphorylation site [posttranslational modification] 550542006288 intermolecular recognition site; other site 550542006289 dimerization interface [polypeptide binding]; other site 550542006290 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 550542006291 DNA binding residues [nucleotide binding] 550542006292 dimerization interface [polypeptide binding]; other site 550542006293 PAS domain S-box; Region: sensory_box; TIGR00229 550542006294 PAS domain; Region: PAS_8; pfam13188 550542006295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 550542006296 Histidine kinase; Region: HisKA_3; pfam07730 550542006297 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 550542006298 ATP binding site [chemical binding]; other site 550542006299 Mg2+ binding site [ion binding]; other site 550542006300 G-X-G motif; other site 550542006301 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 550542006302 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 550542006303 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 550542006304 active site residue [active] 550542006305 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 550542006306 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 550542006307 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 550542006308 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550542006309 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550542006310 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 550542006311 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 550542006312 active site residue [active] 550542006313 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 550542006314 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 550542006315 putative substrate translocation pore; other site 550542006316 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 550542006317 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 550542006318 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 550542006319 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 550542006320 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 550542006321 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 550542006322 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 550542006323 active site 550542006324 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 550542006325 hypothetical protein; Provisional; Region: PRK02947 550542006326 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 550542006327 putative active site [active] 550542006328 Protein of unknown function (DUF1341); Region: DUF1341; cl06211 550542006329 Creatinine amidohydrolase; Region: Creatininase; pfam02633 550542006330 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 550542006331 active site 550542006332 substrate binding pocket [chemical binding]; other site 550542006333 homodimer interaction site [polypeptide binding]; other site 550542006334 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542006335 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 550542006336 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 550542006337 active site 550542006338 P-loop; other site 550542006339 phosphorylation site [posttranslational modification] 550542006340 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 550542006341 active site 550542006342 phosphorylation site [posttranslational modification] 550542006343 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 550542006344 HTH domain; Region: HTH_11; pfam08279 550542006345 PRD domain; Region: PRD; pfam00874 550542006346 PRD domain; Region: PRD; pfam00874 550542006347 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 550542006348 active site 550542006349 P-loop; other site 550542006350 phosphorylation site [posttranslational modification] 550542006351 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 550542006352 active site 550542006353 phosphorylation site [posttranslational modification] 550542006354 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 550542006355 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542006356 DDE superfamily endonuclease; Region: DDE_5; cl17874 550542006357 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542006358 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 550542006359 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 550542006360 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 550542006361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542006362 catalytic residue [active] 550542006363 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 550542006364 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 550542006365 PLD-like domain; Region: PLDc_2; pfam13091 550542006366 putative homodimer interface [polypeptide binding]; other site 550542006367 putative active site [active] 550542006368 catalytic site [active] 550542006369 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 550542006370 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 550542006371 ATP binding site [chemical binding]; other site 550542006372 putative Mg++ binding site [ion binding]; other site 550542006373 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 550542006374 nucleotide binding region [chemical binding]; other site 550542006375 ATP-binding site [chemical binding]; other site 550542006376 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 550542006377 metal binding site [ion binding]; metal-binding site 550542006378 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 550542006379 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 550542006380 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 550542006381 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 550542006382 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 550542006383 conserved cys residue [active] 550542006384 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 550542006385 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 550542006386 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 550542006387 Transcriptional regulators [Transcription]; Region: PurR; COG1609 550542006388 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 550542006389 DNA binding site [nucleotide binding] 550542006390 domain linker motif; other site 550542006391 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 550542006392 dimerization interface [polypeptide binding]; other site 550542006393 ligand binding site [chemical binding]; other site 550542006394 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550542006395 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 550542006396 Coenzyme A binding pocket [chemical binding]; other site 550542006397 metabolite-proton symporter; Region: 2A0106; TIGR00883 550542006398 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 550542006399 putative substrate translocation pore; other site 550542006400 MoaC_like Similar to the MaoC (monoamine oxidase C) dehydratase regulatory protein but without the N-terminal PutA domain. This protein family has a hot-dog fold similar to that of (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: MaoC_like; cd03446 550542006401 homodimer interaction site [polypeptide binding]; other site 550542006402 putative active site [active] 550542006403 putative catalytic site [active] 550542006404 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 550542006405 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 550542006406 dimer interface [polypeptide binding]; other site 550542006407 conserved gate region; other site 550542006408 putative PBP binding loops; other site 550542006409 ABC-ATPase subunit interface; other site 550542006410 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 550542006411 Apolipophorin-III precursor (apoLp-III); Region: ApoLp-III; pfam07464 550542006412 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 550542006413 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 550542006414 dimer interface [polypeptide binding]; other site 550542006415 conserved gate region; other site 550542006416 putative PBP binding loops; other site 550542006417 ABC-ATPase subunit interface; other site 550542006418 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 550542006419 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 550542006420 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 550542006421 glutaminase; Provisional; Region: PRK00971 550542006422 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 550542006423 putative active site [active] 550542006424 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 550542006425 putative active site [active] 550542006426 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 550542006427 Transposase; Region: DDE_Tnp_ISL3; pfam01610 550542006428 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 550542006429 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 550542006430 substrate-cofactor binding pocket; other site 550542006431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542006432 catalytic residue [active] 550542006433 acid-soluble spore protein H; Provisional; Region: sspH; PRK03174 550542006434 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 550542006435 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 550542006436 dimer interface [polypeptide binding]; other site 550542006437 putative metal binding site [ion binding]; other site 550542006438 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 550542006439 Predicted integral membrane protein [Function unknown]; Region: COG5658 550542006440 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 550542006441 SdpI/YhfL protein family; Region: SdpI; pfam13630 550542006442 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 550542006443 dimerization interface [polypeptide binding]; other site 550542006444 putative DNA binding site [nucleotide binding]; other site 550542006445 putative Zn2+ binding site [ion binding]; other site 550542006446 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 550542006447 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 550542006448 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 550542006449 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 550542006450 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 550542006451 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 550542006452 acyl-activating enzyme (AAE) consensus motif; other site 550542006453 AMP binding site [chemical binding]; other site 550542006454 active site 550542006455 CoA binding site [chemical binding]; other site 550542006456 Predicted membrane protein [Function unknown]; Region: COG2259 550542006457 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550542006458 ABC transporter signature motif; other site 550542006459 Walker B; other site 550542006460 D-loop; other site 550542006461 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 550542006462 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 550542006463 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550542006464 Walker A/P-loop; other site 550542006465 ATP binding site [chemical binding]; other site 550542006466 Q-loop/lid; other site 550542006467 ABC transporter signature motif; other site 550542006468 Walker B; other site 550542006469 D-loop; other site 550542006470 H-loop/switch region; other site 550542006471 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 550542006472 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 550542006473 Tetratricopeptide repeat; Region: TPR_12; pfam13424 550542006474 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 550542006475 binding surface 550542006476 TPR motif; other site 550542006477 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 550542006478 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542006479 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542006480 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542006481 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542006482 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 550542006483 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 550542006484 putative dimer interface [polypeptide binding]; other site 550542006485 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 550542006486 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 550542006487 DNA binding site [nucleotide binding] 550542006488 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 550542006489 putative dimerization interface [polypeptide binding]; other site 550542006490 putative ligand binding site [chemical binding]; other site 550542006491 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 550542006492 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 550542006493 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 550542006494 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 550542006495 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 550542006496 NAD binding site [chemical binding]; other site 550542006497 homodimer interface [polypeptide binding]; other site 550542006498 active site 550542006499 substrate binding site [chemical binding]; other site 550542006500 galactokinase; Provisional; Region: PRK05322 550542006501 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 550542006502 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 550542006503 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 550542006504 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 550542006505 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 550542006506 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 550542006507 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 550542006508 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 550542006509 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 550542006510 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 550542006511 dimer interface [polypeptide binding]; other site 550542006512 conserved gate region; other site 550542006513 putative PBP binding loops; other site 550542006514 ABC-ATPase subunit interface; other site 550542006515 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 550542006516 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 550542006517 dimer interface [polypeptide binding]; other site 550542006518 conserved gate region; other site 550542006519 putative PBP binding loops; other site 550542006520 ABC-ATPase subunit interface; other site 550542006521 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 550542006522 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 550542006523 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 550542006524 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 550542006525 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 550542006526 EcsC protein family; Region: EcsC; pfam12787 550542006527 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 550542006528 Melibiase; Region: Melibiase; pfam02065 550542006529 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 550542006530 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 550542006531 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 550542006532 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 550542006533 dimerization interface [polypeptide binding]; other site 550542006534 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 550542006535 dimer interface [polypeptide binding]; other site 550542006536 phosphorylation site [posttranslational modification] 550542006537 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 550542006538 ATP binding site [chemical binding]; other site 550542006539 Mg2+ binding site [ion binding]; other site 550542006540 G-X-G motif; other site 550542006541 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550542006542 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 550542006543 active site 550542006544 phosphorylation site [posttranslational modification] 550542006545 intermolecular recognition site; other site 550542006546 dimerization interface [polypeptide binding]; other site 550542006547 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 550542006548 DNA binding site [nucleotide binding] 550542006549 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 550542006550 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 550542006551 putative dimer interface [polypeptide binding]; other site 550542006552 YppG-like protein; Region: YppG; pfam14179 550542006553 YppF-like protein; Region: YppF; pfam14178 550542006554 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 550542006555 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 550542006556 Transglycosylase; Region: Transgly; pfam00912 550542006557 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 550542006558 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 550542006559 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 550542006560 Interdomain contacts; other site 550542006561 Cytokine receptor motif; other site 550542006562 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 550542006563 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 550542006564 minor groove reading motif; other site 550542006565 helix-hairpin-helix signature motif; other site 550542006566 substrate binding pocket [chemical binding]; other site 550542006567 active site 550542006568 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 550542006569 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 550542006570 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 550542006571 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 550542006572 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 550542006573 putative dimer interface [polypeptide binding]; other site 550542006574 putative anticodon binding site; other site 550542006575 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 550542006576 homodimer interface [polypeptide binding]; other site 550542006577 motif 1; other site 550542006578 motif 2; other site 550542006579 active site 550542006580 motif 3; other site 550542006581 aspartate aminotransferase; Provisional; Region: PRK05764 550542006582 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 550542006583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542006584 homodimer interface [polypeptide binding]; other site 550542006585 catalytic residue [active] 550542006586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 550542006587 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 550542006588 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 550542006589 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 550542006590 active site 550542006591 catalytic site [active] 550542006592 substrate binding site [chemical binding]; other site 550542006593 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 550542006594 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 550542006595 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 550542006596 tetramerization interface [polypeptide binding]; other site 550542006597 active site 550542006598 pantoate--beta-alanine ligase; Region: panC; TIGR00018 550542006599 Pantoate-beta-alanine ligase; Region: PanC; cd00560 550542006600 active site 550542006601 ATP-binding site [chemical binding]; other site 550542006602 pantoate-binding site; other site 550542006603 HXXH motif; other site 550542006604 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 550542006605 oligomerization interface [polypeptide binding]; other site 550542006606 active site 550542006607 metal binding site [ion binding]; metal-binding site 550542006608 Biotin operon repressor [Transcription]; Region: BirA; COG1654 550542006609 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 550542006610 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 550542006611 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 550542006612 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 550542006613 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 550542006614 active site 550542006615 NTP binding site [chemical binding]; other site 550542006616 metal binding triad [ion binding]; metal-binding site 550542006617 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 550542006618 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 550542006619 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 550542006620 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 550542006621 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 550542006622 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 550542006623 active site 550542006624 dimer interfaces [polypeptide binding]; other site 550542006625 catalytic residues [active] 550542006626 dihydrodipicolinate reductase; Provisional; Region: PRK00048 550542006627 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 550542006628 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 550542006629 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 550542006630 homodimer interface [polypeptide binding]; other site 550542006631 metal binding site [ion binding]; metal-binding site 550542006632 Uncharacterized conserved protein [Function unknown]; Region: COG1284 550542006633 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 550542006634 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 550542006635 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 550542006636 sporulation protein YpjB; Region: spore_ypjB; TIGR02878 550542006637 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 550542006638 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 550542006639 intrachain domain interface; other site 550542006640 Qi binding site; other site 550542006641 Qo binding site; other site 550542006642 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 550542006643 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 550542006644 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 550542006645 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 550542006646 interchain domain interface [polypeptide binding]; other site 550542006647 intrachain domain interface; other site 550542006648 heme bH binding site [chemical binding]; other site 550542006649 Qi binding site; other site 550542006650 heme bL binding site [chemical binding]; other site 550542006651 Qo binding site; other site 550542006652 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 550542006653 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 550542006654 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 550542006655 iron-sulfur cluster [ion binding]; other site 550542006656 [2Fe-2S] cluster binding site [ion binding]; other site 550542006657 Protein of unknown function (DUF2487); Region: DUF2487; pfam10673 550542006658 hypothetical protein; Provisional; Region: PRK03636 550542006659 UPF0302 domain; Region: UPF0302; pfam08864 550542006660 IDEAL domain; Region: IDEAL; pfam08858 550542006661 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 550542006662 binding surface 550542006663 TPR motif; other site 550542006664 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 550542006665 binding surface 550542006666 TPR motif; other site 550542006667 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 550542006668 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 550542006669 hinge; other site 550542006670 active site 550542006671 prephenate dehydrogenase; Validated; Region: PRK06545 550542006672 prephenate dehydrogenase; Validated; Region: PRK08507 550542006673 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 550542006674 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 550542006675 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 550542006676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542006677 homodimer interface [polypeptide binding]; other site 550542006678 catalytic residue [active] 550542006679 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 550542006680 substrate binding site [chemical binding]; other site 550542006681 active site 550542006682 catalytic residues [active] 550542006683 heterodimer interface [polypeptide binding]; other site 550542006684 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 550542006685 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 550542006686 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542006687 catalytic residue [active] 550542006688 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 550542006689 active site 550542006690 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 550542006691 active site 550542006692 ribulose/triose binding site [chemical binding]; other site 550542006693 phosphate binding site [ion binding]; other site 550542006694 substrate (anthranilate) binding pocket [chemical binding]; other site 550542006695 product (indole) binding pocket [chemical binding]; other site 550542006696 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 550542006697 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 550542006698 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 550542006699 anthranilate synthase component I; Provisional; Region: PRK13569 550542006700 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 550542006701 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 550542006702 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 550542006703 homotrimer interaction site [polypeptide binding]; other site 550542006704 active site 550542006705 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 550542006706 active site 550542006707 dimer interface [polypeptide binding]; other site 550542006708 metal binding site [ion binding]; metal-binding site 550542006709 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 550542006710 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 550542006711 Tetramer interface [polypeptide binding]; other site 550542006712 active site 550542006713 FMN-binding site [chemical binding]; other site 550542006714 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 550542006715 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 550542006716 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 550542006717 S-adenosylmethionine binding site [chemical binding]; other site 550542006718 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 550542006719 active site 550542006720 multimer interface [polypeptide binding]; other site 550542006721 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 550542006722 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 550542006723 substrate binding pocket [chemical binding]; other site 550542006724 chain length determination region; other site 550542006725 substrate-Mg2+ binding site; other site 550542006726 catalytic residues [active] 550542006727 aspartate-rich region 1; other site 550542006728 active site lid residues [active] 550542006729 aspartate-rich region 2; other site 550542006730 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 550542006731 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 550542006732 S-adenosylmethionine binding site [chemical binding]; other site 550542006733 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 550542006734 transcription attenuation protein MtrB; Provisional; Region: PRK13251 550542006735 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 550542006736 homodecamer interface [polypeptide binding]; other site 550542006737 GTP cyclohydrolase I; Provisional; Region: PLN03044 550542006738 active site 550542006739 putative catalytic site residues [active] 550542006740 zinc binding site [ion binding]; other site 550542006741 GTP-CH-I/GFRP interaction surface; other site 550542006742 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 550542006743 IHF dimer interface [polypeptide binding]; other site 550542006744 IHF - DNA interface [nucleotide binding]; other site 550542006745 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 550542006746 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 550542006747 Protein of unknown function (DUF2768); Region: DUF2768; pfam10966 550542006748 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 550542006749 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 550542006750 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 550542006751 GTP-binding protein Der; Reviewed; Region: PRK00093 550542006752 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 550542006753 G1 box; other site 550542006754 GTP/Mg2+ binding site [chemical binding]; other site 550542006755 Switch I region; other site 550542006756 G2 box; other site 550542006757 Switch II region; other site 550542006758 G3 box; other site 550542006759 G4 box; other site 550542006760 G5 box; other site 550542006761 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 550542006762 G1 box; other site 550542006763 GTP/Mg2+ binding site [chemical binding]; other site 550542006764 Switch I region; other site 550542006765 G2 box; other site 550542006766 G3 box; other site 550542006767 Switch II region; other site 550542006768 G4 box; other site 550542006769 G5 box; other site 550542006770 YIEGIA protein; Region: YIEGIA; pfam14045 550542006771 YpzI-like protein; Region: YpzI; pfam14140 550542006772 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 550542006773 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 550542006774 RNA binding site [nucleotide binding]; other site 550542006775 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 550542006776 RNA binding site [nucleotide binding]; other site 550542006777 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 550542006778 RNA binding site [nucleotide binding]; other site 550542006779 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 550542006780 RNA binding site [nucleotide binding]; other site 550542006781 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 550542006782 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 550542006783 putative acyl-acceptor binding pocket; other site 550542006784 cytidylate kinase; Provisional; Region: cmk; PRK00023 550542006785 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 550542006786 CMP-binding site; other site 550542006787 The sites determining sugar specificity; other site 550542006788 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 550542006789 Flagellar protein YcgR; Region: YcgR_2; pfam12945 550542006790 PilZ domain; Region: PilZ; pfam07238 550542006791 germination protein YpeB; Region: spore_YpeB; TIGR02889 550542006792 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 550542006793 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 550542006794 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 550542006795 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 550542006796 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 550542006797 active site 550542006798 homotetramer interface [polypeptide binding]; other site 550542006799 homodimer interface [polypeptide binding]; other site 550542006800 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 550542006801 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 550542006802 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550542006803 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 550542006804 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 550542006805 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 550542006806 NAD(P) binding site [chemical binding]; other site 550542006807 adaptor protein; Provisional; Region: PRK02899 550542006808 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 550542006809 CotJB protein; Region: CotJB; pfam12652 550542006810 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 550542006811 dimanganese center [ion binding]; other site 550542006812 Protein of unknown function (DUF2663); Region: DUF2663; pfam10864 550542006813 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542006814 CAAX protease self-immunity; Region: Abi; pfam02517 550542006815 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 550542006816 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 550542006817 ATP binding site [chemical binding]; other site 550542006818 putative Mg++ binding site [ion binding]; other site 550542006819 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 550542006820 nucleotide binding region [chemical binding]; other site 550542006821 ATP-binding site [chemical binding]; other site 550542006822 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 550542006823 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 550542006824 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 550542006825 dimer interface [polypeptide binding]; other site 550542006826 substrate binding site [chemical binding]; other site 550542006827 metal binding sites [ion binding]; metal-binding site 550542006828 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 550542006829 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 550542006830 ligand binding site [chemical binding]; other site 550542006831 NAD binding site [chemical binding]; other site 550542006832 dimerization interface [polypeptide binding]; other site 550542006833 catalytic site [active] 550542006834 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 550542006835 putative L-serine binding site [chemical binding]; other site 550542006836 histidinol-phosphatase; Provisional; Region: PRK07328 550542006837 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 550542006838 active site 550542006839 dimer interface [polypeptide binding]; other site 550542006840 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 550542006841 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550542006842 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 550542006843 DNA binding residues [nucleotide binding] 550542006844 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 550542006845 ATP binding site [chemical binding]; other site 550542006846 dimerization interface [polypeptide binding]; other site 550542006847 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 550542006848 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 550542006849 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 550542006850 catalytic core [active] 550542006851 cobalamin synthase; Reviewed; Region: cobS; PRK00235 550542006852 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 550542006853 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 550542006854 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 550542006855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542006856 homodimer interface [polypeptide binding]; other site 550542006857 catalytic residue [active] 550542006858 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 550542006859 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 550542006860 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 550542006861 Walker A/P-loop; other site 550542006862 ATP binding site [chemical binding]; other site 550542006863 Q-loop/lid; other site 550542006864 ABC transporter signature motif; other site 550542006865 Walker B; other site 550542006866 D-loop; other site 550542006867 H-loop/switch region; other site 550542006868 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 550542006869 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 550542006870 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 550542006871 putative PBP binding regions; other site 550542006872 ABC-ATPase subunit interface; other site 550542006873 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 550542006874 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 550542006875 putative binding site residues; other site 550542006876 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 550542006877 nudix motif; other site 550542006878 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 550542006879 pentamer interface [polypeptide binding]; other site 550542006880 dodecaamer interface [polypeptide binding]; other site 550542006881 YvbH-like oligomerisation region; Region: YvbH_ext; pfam11724 550542006882 amino acid transporter; Region: 2A0306; TIGR00909 550542006883 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 550542006884 Site-specific recombinase; Region: SpecificRecomb; cl15411 550542006885 Response regulator receiver domain; Region: Response_reg; pfam00072 550542006886 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 550542006887 active site 550542006888 phosphorylation site [posttranslational modification] 550542006889 intermolecular recognition site; other site 550542006890 dimerization interface [polypeptide binding]; other site 550542006891 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 550542006892 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550542006893 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550542006894 Histidine kinase; Region: His_kinase; pfam06580 550542006895 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 550542006896 Mg2+ binding site [ion binding]; other site 550542006897 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 550542006898 phosphate binding site [ion binding]; other site 550542006899 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 550542006900 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 550542006901 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 550542006902 active site turn [active] 550542006903 phosphorylation site [posttranslational modification] 550542006904 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 550542006905 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550542006906 DNA-binding site [nucleotide binding]; DNA binding site 550542006907 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 550542006908 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 550542006909 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 550542006910 active site 550542006911 trimer interface [polypeptide binding]; other site 550542006912 allosteric site; other site 550542006913 active site lid [active] 550542006914 hexamer (dimer of trimers) interface [polypeptide binding]; other site 550542006915 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 550542006916 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 550542006917 active site 550542006918 dimer interface [polypeptide binding]; other site 550542006919 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 550542006920 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 550542006921 dimerization interface [polypeptide binding]; other site 550542006922 PAS domain; Region: PAS; smart00091 550542006923 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 550542006924 dimer interface [polypeptide binding]; other site 550542006925 phosphorylation site [posttranslational modification] 550542006926 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 550542006927 ATP binding site [chemical binding]; other site 550542006928 Mg2+ binding site [ion binding]; other site 550542006929 G-X-G motif; other site 550542006930 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550542006931 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 550542006932 active site 550542006933 phosphorylation site [posttranslational modification] 550542006934 intermolecular recognition site; other site 550542006935 dimerization interface [polypeptide binding]; other site 550542006936 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 550542006937 DNA binding site [nucleotide binding] 550542006938 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 550542006939 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 550542006940 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 550542006941 Double zinc ribbon; Region: DZR; pfam12773 550542006942 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 550542006943 ResB-like family; Region: ResB; pfam05140 550542006944 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 550542006945 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 550542006946 catalytic residues [active] 550542006947 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 550542006948 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 550542006949 RNA binding surface [nucleotide binding]; other site 550542006950 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 550542006951 active site 550542006952 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 550542006953 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 550542006954 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 550542006955 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 550542006956 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 550542006957 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 550542006958 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 550542006959 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 550542006960 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 550542006961 Domain of unknown function (DUF309); Region: DUF309; pfam03745 550542006962 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550542006963 Coenzyme A binding pocket [chemical binding]; other site 550542006964 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 550542006965 homopentamer interface [polypeptide binding]; other site 550542006966 active site 550542006967 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 550542006968 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 550542006969 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 550542006970 dimerization interface [polypeptide binding]; other site 550542006971 active site 550542006972 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 550542006973 Lumazine binding domain; Region: Lum_binding; pfam00677 550542006974 Lumazine binding domain; Region: Lum_binding; pfam00677 550542006975 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 550542006976 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 550542006977 catalytic motif [active] 550542006978 Zn binding site [ion binding]; other site 550542006979 RibD C-terminal domain; Region: RibD_C; cl17279 550542006980 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 550542006981 active site 550542006982 Predicted secreted protein [Function unknown]; Region: COG4086 550542006983 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 550542006984 diaminopimelate decarboxylase; Region: lysA; TIGR01048 550542006985 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 550542006986 active site 550542006987 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 550542006988 substrate binding site [chemical binding]; other site 550542006989 catalytic residues [active] 550542006990 dimer interface [polypeptide binding]; other site 550542006991 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 550542006992 Stage V sporulation protein AE1; Region: SpoVAE; pfam14097 550542006993 SpoVA protein; Region: SpoVA; pfam03862 550542006994 stage V sporulation protein AD; Validated; Region: PRK08304 550542006995 stage V sporulation protein AD; Provisional; Region: PRK12404 550542006996 SpoVA protein; Region: SpoVA; cl04298 550542006997 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 550542006998 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 550542006999 sporulation sigma factor SigF; Validated; Region: PRK05572 550542007000 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550542007001 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 550542007002 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 550542007003 DNA binding residues [nucleotide binding] 550542007004 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 550542007005 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 550542007006 ATP binding site [chemical binding]; other site 550542007007 Mg2+ binding site [ion binding]; other site 550542007008 G-X-G motif; other site 550542007009 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 550542007010 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 550542007011 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 550542007012 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 550542007013 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 550542007014 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 550542007015 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 550542007016 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 550542007017 purine nucleoside phosphorylase; Provisional; Region: PRK08202 550542007018 phosphopentomutase; Provisional; Region: PRK05362 550542007019 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 550542007020 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 550542007021 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 550542007022 active site 550542007023 Int/Topo IB signature motif; other site 550542007024 Protein of unknown function (DUF4227); Region: DUF4227; pfam14004 550542007025 ferric uptake regulator; Provisional; Region: fur; PRK09462 550542007026 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 550542007027 metal binding site 2 [ion binding]; metal-binding site 550542007028 putative DNA binding helix; other site 550542007029 metal binding site 1 [ion binding]; metal-binding site 550542007030 dimer interface [polypeptide binding]; other site 550542007031 structural Zn2+ binding site [ion binding]; other site 550542007032 stage II sporulation protein M; Region: spo_II_M; TIGR02831 550542007033 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 550542007034 PHP-associated; Region: PHP_C; pfam13263 550542007035 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 550542007036 DNA binding site [nucleotide binding] 550542007037 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 550542007038 dimer interface [polypeptide binding]; other site 550542007039 ADP-ribose binding site [chemical binding]; other site 550542007040 active site 550542007041 nudix motif; other site 550542007042 metal binding site [ion binding]; metal-binding site 550542007043 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 550542007044 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 550542007045 active site 550542007046 catalytic tetrad [active] 550542007047 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 550542007048 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 550542007049 putative substrate translocation pore; other site 550542007050 Protein of unknown function (DUF2552); Region: DUF2552; pfam10827 550542007051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 550542007052 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 550542007053 YqzH-like protein; Region: YqzH; pfam14164 550542007054 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 550542007055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550542007056 NAD(P) binding site [chemical binding]; other site 550542007057 active site 550542007058 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550542007059 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK07679 550542007060 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 550542007061 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 550542007062 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 550542007063 active site 550542007064 FMN binding site [chemical binding]; other site 550542007065 substrate binding site [chemical binding]; other site 550542007066 homotetramer interface [polypeptide binding]; other site 550542007067 catalytic residue [active] 550542007068 ribonuclease Z; Region: RNase_Z; TIGR02651 550542007069 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 550542007070 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 550542007071 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 550542007072 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 550542007073 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 550542007074 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 550542007075 beta-galactosidase; Region: BGL; TIGR03356 550542007076 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550542007077 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 550542007078 active site 550542007079 phosphorylation site [posttranslational modification] 550542007080 intermolecular recognition site; other site 550542007081 dimerization interface [polypeptide binding]; other site 550542007082 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 550542007083 DNA binding site [nucleotide binding] 550542007084 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550542007085 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 550542007086 ATP binding site [chemical binding]; other site 550542007087 Mg2+ binding site [ion binding]; other site 550542007088 G-X-G motif; other site 550542007089 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 550542007090 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 550542007091 Walker A/P-loop; other site 550542007092 ATP binding site [chemical binding]; other site 550542007093 Q-loop/lid; other site 550542007094 ABC transporter signature motif; other site 550542007095 Walker B; other site 550542007096 D-loop; other site 550542007097 H-loop/switch region; other site 550542007098 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 550542007099 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 550542007100 non-specific DNA binding site [nucleotide binding]; other site 550542007101 salt bridge; other site 550542007102 sequence-specific DNA binding site [nucleotide binding]; other site 550542007103 transposase/IS protein; Provisional; Region: PRK09183 550542007104 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 550542007105 Walker A motif; other site 550542007106 ATP binding site [chemical binding]; other site 550542007107 Walker B motif; other site 550542007108 arginine finger; other site 550542007109 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542007110 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 550542007111 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542007112 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 550542007113 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 550542007114 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 550542007115 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 550542007116 Walker A motif; other site 550542007117 ATP binding site [chemical binding]; other site 550542007118 Walker B motif; other site 550542007119 arginine finger; other site 550542007120 DDE superfamily endonuclease; Region: DDE_5; cl17874 550542007121 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542007122 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 550542007123 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 550542007124 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 550542007125 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 550542007126 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 550542007127 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 550542007128 peptidase T-like protein; Region: PepT-like; TIGR01883 550542007129 metal binding site [ion binding]; metal-binding site 550542007130 putative dimer interface [polypeptide binding]; other site 550542007131 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 550542007132 Integrase core domain; Region: rve; pfam00665 550542007133 DDE domain; Region: DDE_Tnp_IS240; pfam13610 550542007134 Integrase core domain; Region: rve_3; cl15866 550542007135 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 550542007136 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 550542007137 putative DNA binding site [nucleotide binding]; other site 550542007138 putative Zn2+ binding site [ion binding]; other site 550542007139 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542007140 Predicted permeases [General function prediction only]; Region: COG0701 550542007141 Winged helix-turn helix; Region: HTH_29; pfam13551 550542007142 Homeodomain-like domain; Region: HTH_32; pfam13565 550542007143 Integrase core domain; Region: rve; pfam00665 550542007144 Integrase core domain; Region: rve_3; pfam13683 550542007145 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 550542007146 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 550542007147 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 550542007148 Walker A motif; other site 550542007149 ATP binding site [chemical binding]; other site 550542007150 Walker B motif; other site 550542007151 arginine finger; other site 550542007152 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 550542007153 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542007154 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 550542007155 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542007156 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 550542007157 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 550542007158 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 550542007159 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 550542007160 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 550542007161 dimer interface [polypeptide binding]; other site 550542007162 substrate binding site [chemical binding]; other site 550542007163 metal binding site [ion binding]; metal-binding site 550542007164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 550542007165 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 550542007166 Predicted membrane protein [Function unknown]; Region: COG4129 550542007167 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 550542007168 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 550542007169 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 550542007170 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 550542007171 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 550542007172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550542007173 Walker A/P-loop; other site 550542007174 ATP binding site [chemical binding]; other site 550542007175 Q-loop/lid; other site 550542007176 ABC transporter signature motif; other site 550542007177 Walker B; other site 550542007178 D-loop; other site 550542007179 H-loop/switch region; other site 550542007180 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 550542007181 active site 550542007182 NTP binding site [chemical binding]; other site 550542007183 metal binding triad [ion binding]; metal-binding site 550542007184 antibiotic binding site [chemical binding]; other site 550542007185 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 550542007186 ATP binding site [chemical binding]; other site 550542007187 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 550542007188 putative Mg++ binding site [ion binding]; other site 550542007189 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 550542007190 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 550542007191 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 550542007192 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 550542007193 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 550542007194 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 550542007195 ATP binding site [chemical binding]; other site 550542007196 putative Mg++ binding site [ion binding]; other site 550542007197 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 550542007198 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 550542007199 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 550542007200 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 550542007201 HsdM N-terminal domain; Region: HsdM_N; pfam12161 550542007202 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 550542007203 Methyltransferase domain; Region: Methyltransf_26; pfam13659 550542007204 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 550542007205 Methyltransferase domain; Region: Methyltransf_26; pfam13659 550542007206 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 550542007207 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 550542007208 active site 550542007209 NTP binding site [chemical binding]; other site 550542007210 metal binding triad [ion binding]; metal-binding site 550542007211 antibiotic binding site [chemical binding]; other site 550542007212 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 550542007213 Disulphide isomerase; Region: Disulph_isomer; pfam06491 550542007214 membrane ATPase/protein kinase; Provisional; Region: PRK09435 550542007215 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 550542007216 Walker A; other site 550542007217 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 550542007218 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 550542007219 active site 550542007220 substrate binding site [chemical binding]; other site 550542007221 coenzyme B12 binding site [chemical binding]; other site 550542007222 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 550542007223 B12 binding site [chemical binding]; other site 550542007224 cobalt ligand [ion binding]; other site 550542007225 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 550542007226 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 550542007227 heterodimer interface [polypeptide binding]; other site 550542007228 substrate interaction site [chemical binding]; other site 550542007229 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 550542007230 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 550542007231 putative active site [active] 550542007232 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 550542007233 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 550542007234 dimerization interface [polypeptide binding]; other site 550542007235 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 550542007236 dimer interface [polypeptide binding]; other site 550542007237 phosphorylation site [posttranslational modification] 550542007238 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 550542007239 ATP binding site [chemical binding]; other site 550542007240 Mg2+ binding site [ion binding]; other site 550542007241 G-X-G motif; other site 550542007242 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550542007243 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 550542007244 active site 550542007245 phosphorylation site [posttranslational modification] 550542007246 intermolecular recognition site; other site 550542007247 dimerization interface [polypeptide binding]; other site 550542007248 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 550542007249 DNA binding site [nucleotide binding] 550542007250 Uncharacterized conserved protein [Function unknown]; Region: COG3391 550542007251 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 550542007252 structural tetrad; other site 550542007253 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542007254 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542007255 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 550542007256 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 550542007257 E3 interaction surface; other site 550542007258 lipoyl attachment site [posttranslational modification]; other site 550542007259 e3 binding domain; Region: E3_binding; pfam02817 550542007260 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 550542007261 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 550542007262 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 550542007263 alpha subunit interface [polypeptide binding]; other site 550542007264 TPP binding site [chemical binding]; other site 550542007265 heterodimer interface [polypeptide binding]; other site 550542007266 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 550542007267 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 550542007268 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 550542007269 tetramer interface [polypeptide binding]; other site 550542007270 TPP-binding site [chemical binding]; other site 550542007271 heterodimer interface [polypeptide binding]; other site 550542007272 phosphorylation loop region [posttranslational modification] 550542007273 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 550542007274 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 550542007275 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550542007276 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 550542007277 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 550542007278 nucleotide binding site [chemical binding]; other site 550542007279 Acetokinase family; Region: Acetate_kinase; cl17229 550542007280 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 550542007281 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 550542007282 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 550542007283 NAD binding site [chemical binding]; other site 550542007284 Phe binding site; other site 550542007285 phosphate butyryltransferase; Validated; Region: PRK07742 550542007286 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 550542007287 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 550542007288 putative active site [active] 550542007289 heme pocket [chemical binding]; other site 550542007290 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 550542007291 putative active site [active] 550542007292 heme pocket [chemical binding]; other site 550542007293 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 550542007294 Walker A motif; other site 550542007295 ATP binding site [chemical binding]; other site 550542007296 Walker B motif; other site 550542007297 arginine finger; other site 550542007298 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 550542007299 Protein of unknown function (DUF2627); Region: DUF2627; pfam11118 550542007300 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 550542007301 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 550542007302 active site 550542007303 catalytic site [active] 550542007304 metal binding site [ion binding]; metal-binding site 550542007305 dimer interface [polypeptide binding]; other site 550542007306 YycC-like protein; Region: YycC; pfam14174 550542007307 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 550542007308 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 550542007309 active site 550542007310 phosphorylation site [posttranslational modification] 550542007311 intermolecular recognition site; other site 550542007312 dimerization interface [polypeptide binding]; other site 550542007313 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 550542007314 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 550542007315 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 550542007316 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 550542007317 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 550542007318 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 550542007319 Walker A/P-loop; other site 550542007320 ATP binding site [chemical binding]; other site 550542007321 Q-loop/lid; other site 550542007322 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 550542007323 ABC transporter signature motif; other site 550542007324 Walker B; other site 550542007325 D-loop; other site 550542007326 H-loop/switch region; other site 550542007327 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 550542007328 arginine repressor; Provisional; Region: PRK04280 550542007329 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 550542007330 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 550542007331 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 550542007332 RNA binding surface [nucleotide binding]; other site 550542007333 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 550542007334 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 550542007335 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 550542007336 TPP-binding site; other site 550542007337 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 550542007338 PYR/PP interface [polypeptide binding]; other site 550542007339 dimer interface [polypeptide binding]; other site 550542007340 TPP binding site [chemical binding]; other site 550542007341 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 550542007342 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 550542007343 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 550542007344 substrate binding pocket [chemical binding]; other site 550542007345 chain length determination region; other site 550542007346 substrate-Mg2+ binding site; other site 550542007347 catalytic residues [active] 550542007348 aspartate-rich region 1; other site 550542007349 active site lid residues [active] 550542007350 aspartate-rich region 2; other site 550542007351 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14063 550542007352 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 550542007353 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 550542007354 generic binding surface II; other site 550542007355 generic binding surface I; other site 550542007356 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 550542007357 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 550542007358 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 550542007359 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 550542007360 homodimer interface [polypeptide binding]; other site 550542007361 NADP binding site [chemical binding]; other site 550542007362 substrate binding site [chemical binding]; other site 550542007363 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 550542007364 putative RNA binding site [nucleotide binding]; other site 550542007365 Asp23 family; Region: Asp23; pfam03780 550542007366 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 550542007367 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 550542007368 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 550542007369 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 550542007370 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 550542007371 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 550542007372 carboxyltransferase (CT) interaction site; other site 550542007373 biotinylation site [posttranslational modification]; other site 550542007374 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 550542007375 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 550542007376 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 550542007377 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 550542007378 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 550542007379 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 550542007380 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 550542007381 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 550542007382 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 550542007383 Walker A motif; other site 550542007384 ATP binding site [chemical binding]; other site 550542007385 Walker B motif; other site 550542007386 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 550542007387 elongation factor P; Validated; Region: PRK00529 550542007388 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 550542007389 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 550542007390 RNA binding site [nucleotide binding]; other site 550542007391 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 550542007392 RNA binding site [nucleotide binding]; other site 550542007393 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 550542007394 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 550542007395 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 550542007396 active site 550542007397 Conserved membrane protein YqhR; Region: YqhR; pfam11085 550542007398 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 550542007399 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 550542007400 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 550542007401 active site 550542007402 nucleophile elbow; other site 550542007403 manganese transport transcriptional regulator; Provisional; Region: PRK03902 550542007404 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 550542007405 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 550542007406 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 550542007407 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 550542007408 FeS/SAM binding site; other site 550542007409 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 550542007410 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542007411 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 550542007412 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542007413 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542007414 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 550542007415 active site 550542007416 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 550542007417 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 550542007418 active site 550542007419 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 550542007420 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542007421 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542007422 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542007423 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542007424 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 550542007425 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 550542007426 active site residue [active] 550542007427 MarR family; Region: MarR_2; pfam12802 550542007428 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 550542007429 ROK family; Region: ROK; pfam00480 550542007430 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 550542007431 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 550542007432 tetramer interface [polypeptide binding]; other site 550542007433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542007434 catalytic residue [active] 550542007435 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 550542007436 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 550542007437 tetramer interface [polypeptide binding]; other site 550542007438 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542007439 catalytic residue [active] 550542007440 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 550542007441 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 550542007442 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 550542007443 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 550542007444 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 550542007445 ATP binding site [chemical binding]; other site 550542007446 putative Mg++ binding site [ion binding]; other site 550542007447 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 550542007448 nucleotide binding region [chemical binding]; other site 550542007449 ATP-binding site [chemical binding]; other site 550542007450 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 550542007451 YqzE-like protein; Region: YqzE; pfam14038 550542007452 ComG operon protein 7; Region: ComGG; pfam14173 550542007453 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 550542007454 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 550542007455 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 550542007456 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 550542007457 Type II/IV secretion system protein; Region: T2SE; pfam00437 550542007458 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 550542007459 Walker A motif; other site 550542007460 ATP binding site [chemical binding]; other site 550542007461 Walker B motif; other site 550542007462 DDE superfamily endonuclease; Region: DDE_5; cl17874 550542007463 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542007464 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 550542007465 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 550542007466 putative DNA binding site [nucleotide binding]; other site 550542007467 dimerization interface [polypeptide binding]; other site 550542007468 Predicted transcriptional regulator [Transcription]; Region: COG2345 550542007469 putative Zn2+ binding site [ion binding]; other site 550542007470 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542007471 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542007472 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542007473 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542007474 Protein of unknown function (DUF2626); Region: DUF2626; pfam11117 550542007475 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 550542007476 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550542007477 Protein of unknown function (DUF2759); Region: DUF2759; pfam10958 550542007478 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 550542007479 putative active site [active] 550542007480 Zn binding site [ion binding]; other site 550542007481 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 550542007482 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 550542007483 nucleotide binding site [chemical binding]; other site 550542007484 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 550542007485 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 550542007486 Rhomboid family; Region: Rhomboid; pfam01694 550542007487 Integral membrane protein DUF92; Region: DUF92; pfam01940 550542007488 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 550542007489 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 550542007490 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 550542007491 YceG-like family; Region: YceG; pfam02618 550542007492 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 550542007493 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 550542007494 Walker A/P-loop; other site 550542007495 ATP binding site [chemical binding]; other site 550542007496 Q-loop/lid; other site 550542007497 ABC transporter signature motif; other site 550542007498 Walker B; other site 550542007499 D-loop; other site 550542007500 H-loop/switch region; other site 550542007501 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 550542007502 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 550542007503 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 550542007504 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 550542007505 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 550542007506 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550542007507 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 550542007508 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542007509 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 550542007510 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 550542007511 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 550542007512 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 550542007513 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 550542007514 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 550542007515 dimer interface [polypeptide binding]; other site 550542007516 conserved gate region; other site 550542007517 putative PBP binding loops; other site 550542007518 ABC-ATPase subunit interface; other site 550542007519 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 550542007520 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 550542007521 dimer interface [polypeptide binding]; other site 550542007522 conserved gate region; other site 550542007523 putative PBP binding loops; other site 550542007524 ABC-ATPase subunit interface; other site 550542007525 phosphate binding protein; Region: ptsS_2; TIGR02136 550542007526 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 550542007527 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 550542007528 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 550542007529 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 550542007530 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 550542007531 Uncharacterized conserved protein [Function unknown]; Region: COG5663 550542007532 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 550542007533 metal binding site 2 [ion binding]; metal-binding site 550542007534 putative DNA binding helix; other site 550542007535 metal binding site 1 [ion binding]; metal-binding site 550542007536 dimer interface [polypeptide binding]; other site 550542007537 structural Zn2+ binding site [ion binding]; other site 550542007538 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 550542007539 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 550542007540 ABC-ATPase subunit interface; other site 550542007541 dimer interface [polypeptide binding]; other site 550542007542 putative PBP binding regions; other site 550542007543 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 550542007544 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 550542007545 Uncharacterized conserved protein [Function unknown]; Region: COG1284 550542007546 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 550542007547 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 550542007548 Protein of unknown function (DUF2624); Region: DUF2624; pfam11116 550542007549 endonuclease IV; Provisional; Region: PRK01060 550542007550 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 550542007551 AP (apurinic/apyrimidinic) site pocket; other site 550542007552 DNA interaction; other site 550542007553 Metal-binding active site; metal-binding site 550542007554 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 550542007555 DEAD-like helicases superfamily; Region: DEXDc; smart00487 550542007556 ATP binding site [chemical binding]; other site 550542007557 Mg++ binding site [ion binding]; other site 550542007558 motif III; other site 550542007559 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 550542007560 nucleotide binding region [chemical binding]; other site 550542007561 ATP-binding site [chemical binding]; other site 550542007562 YqfQ-like protein; Region: YqfQ; pfam14181 550542007563 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 550542007564 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 550542007565 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 550542007566 Uncharacterized conserved protein [Function unknown]; Region: COG0327 550542007567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 550542007568 Uncharacterized conserved protein [Function unknown]; Region: COG0327 550542007569 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 550542007570 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 550542007571 Family of unknown function (DUF633); Region: DUF633; pfam04816 550542007572 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 550542007573 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 550542007574 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 550542007575 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 550542007576 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 550542007577 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550542007578 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 550542007579 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 550542007580 DNA binding residues [nucleotide binding] 550542007581 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542007582 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542007583 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542007584 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542007585 DNA primase; Validated; Region: dnaG; PRK05667 550542007586 CHC2 zinc finger; Region: zf-CHC2; pfam01807 550542007587 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 550542007588 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 550542007589 active site 550542007590 metal binding site [ion binding]; metal-binding site 550542007591 interdomain interaction site; other site 550542007592 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 550542007593 PEP synthetase regulatory protein; Provisional; Region: PRK05339 550542007594 HTH domain; Region: HTH_11; pfam08279 550542007595 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 550542007596 FOG: CBS domain [General function prediction only]; Region: COG0517 550542007597 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 550542007598 Recombination protein O N terminal; Region: RecO_N; pfam11967 550542007599 Recombination protein O C terminal; Region: RecO_C; pfam02565 550542007600 YqzL-like protein; Region: YqzL; pfam14006 550542007601 GTPase Era; Reviewed; Region: era; PRK00089 550542007602 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 550542007603 G1 box; other site 550542007604 GTP/Mg2+ binding site [chemical binding]; other site 550542007605 Switch I region; other site 550542007606 G2 box; other site 550542007607 Switch II region; other site 550542007608 G3 box; other site 550542007609 G4 box; other site 550542007610 G5 box; other site 550542007611 KH domain; Region: KH_2; pfam07650 550542007612 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 550542007613 active site 550542007614 catalytic motif [active] 550542007615 Zn binding site [ion binding]; other site 550542007616 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 550542007617 metal-binding heat shock protein; Provisional; Region: PRK00016 550542007618 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 550542007619 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 550542007620 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550542007621 Zn2+ binding site [ion binding]; other site 550542007622 Mg2+ binding site [ion binding]; other site 550542007623 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 550542007624 PhoH-like protein; Region: PhoH; pfam02562 550542007625 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 550542007626 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 550542007627 sporulation protein YqfC; Region: spore_yqfC; TIGR02856 550542007628 Yqey-like protein; Region: YqeY; pfam09424 550542007629 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 550542007630 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 550542007631 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 550542007632 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 550542007633 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 550542007634 intersubunit interface [polypeptide binding]; other site 550542007635 active site 550542007636 catalytic residue [active] 550542007637 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 550542007638 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 550542007639 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 550542007640 FeS/SAM binding site; other site 550542007641 TRAM domain; Region: TRAM; pfam01938 550542007642 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 550542007643 RNA methyltransferase, RsmE family; Region: TIGR00046 550542007644 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 550542007645 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 550542007646 S-adenosylmethionine binding site [chemical binding]; other site 550542007647 chaperone protein DnaJ; Provisional; Region: PRK14280 550542007648 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 550542007649 HSP70 interaction site [polypeptide binding]; other site 550542007650 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 550542007651 substrate binding site [polypeptide binding]; other site 550542007652 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 550542007653 Zn binding sites [ion binding]; other site 550542007654 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 550542007655 dimer interface [polypeptide binding]; other site 550542007656 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 550542007657 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 550542007658 nucleotide binding site [chemical binding]; other site 550542007659 NEF interaction site [polypeptide binding]; other site 550542007660 SBD interface [polypeptide binding]; other site 550542007661 heat shock protein GrpE; Provisional; Region: PRK14140 550542007662 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 550542007663 dimer interface [polypeptide binding]; other site 550542007664 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 550542007665 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 550542007666 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 550542007667 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 550542007668 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 550542007669 FeS/SAM binding site; other site 550542007670 HemN C-terminal domain; Region: HemN_C; pfam06969 550542007671 GTP-binding protein LepA; Provisional; Region: PRK05433 550542007672 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 550542007673 G1 box; other site 550542007674 putative GEF interaction site [polypeptide binding]; other site 550542007675 GTP/Mg2+ binding site [chemical binding]; other site 550542007676 Switch I region; other site 550542007677 G2 box; other site 550542007678 G3 box; other site 550542007679 Switch II region; other site 550542007680 G4 box; other site 550542007681 G5 box; other site 550542007682 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 550542007683 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 550542007684 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 550542007685 Protein of unknown function (DUF3679); Region: DUF3679; pfam12438 550542007686 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 550542007687 stage II sporulation protein P; Region: spore_II_P; TIGR02867 550542007688 germination protease; Provisional; Region: PRK02858 550542007689 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 550542007690 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 550542007691 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 550542007692 YqzM-like protein; Region: YqzM; pfam14141 550542007693 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 550542007694 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 550542007695 Competence protein; Region: Competence; pfam03772 550542007696 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550542007697 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 550542007698 catalytic motif [active] 550542007699 Zn binding site [ion binding]; other site 550542007700 SLBB domain; Region: SLBB; pfam10531 550542007701 comEA protein; Region: comE; TIGR01259 550542007702 late competence protein ComER; Validated; Region: PRK07680 550542007703 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 550542007704 Methyltransferase domain; Region: Methyltransf_23; pfam13489 550542007705 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 550542007706 S-adenosylmethionine binding site [chemical binding]; other site 550542007707 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 550542007708 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550542007709 Zn2+ binding site [ion binding]; other site 550542007710 Mg2+ binding site [ion binding]; other site 550542007711 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 550542007712 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 550542007713 active site 550542007714 (T/H)XGH motif; other site 550542007715 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 550542007716 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 550542007717 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 550542007718 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 550542007719 shikimate binding site; other site 550542007720 NAD(P) binding site [chemical binding]; other site 550542007721 GTPase YqeH; Provisional; Region: PRK13796 550542007722 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 550542007723 GTP/Mg2+ binding site [chemical binding]; other site 550542007724 G4 box; other site 550542007725 G5 box; other site 550542007726 G1 box; other site 550542007727 Switch I region; other site 550542007728 G2 box; other site 550542007729 G3 box; other site 550542007730 Switch II region; other site 550542007731 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 550542007732 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 550542007733 active site 550542007734 motif I; other site 550542007735 motif II; other site 550542007736 Sporulation inhibitor A; Region: Sda; pfam08970 550542007737 phosphatidylserine decarboxylase; Provisional; Region: PRK03140 550542007738 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 550542007739 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 550542007740 flagellar motor protein MotA; Validated; Region: PRK08124 550542007741 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 550542007742 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 550542007743 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 550542007744 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 550542007745 ligand binding site [chemical binding]; other site 550542007746 sporulation integral membrane protein YtvI; Region: spore_ytvI; TIGR02872 550542007747 Domain of unknown function DUF20; Region: UPF0118; pfam01594 550542007748 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 550542007749 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 550542007750 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 550542007751 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 550542007752 sporulation sigma factor SigK; Reviewed; Region: PRK05803 550542007753 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550542007754 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 550542007755 DNA binding residues [nucleotide binding] 550542007756 YrhC-like protein; Region: YrhC; pfam14143 550542007757 cystathionine beta-lyase; Provisional; Region: PRK07671 550542007758 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 550542007759 homodimer interface [polypeptide binding]; other site 550542007760 substrate-cofactor binding pocket; other site 550542007761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542007762 catalytic residue [active] 550542007763 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 550542007764 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 550542007765 dimer interface [polypeptide binding]; other site 550542007766 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542007767 catalytic residue [active] 550542007768 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 550542007769 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 550542007770 Methyltransferase domain; Region: Methyltransf_23; pfam13489 550542007771 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 550542007772 S-adenosylmethionine binding site [chemical binding]; other site 550542007773 Protein of unknown function (DUF2536); Region: DUF2536; pfam10750 550542007774 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 550542007775 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 550542007776 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 550542007777 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 550542007778 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 550542007779 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 550542007780 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 550542007781 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 550542007782 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 550542007783 Sugar specificity; other site 550542007784 Pyrimidine base specificity; other site 550542007785 ATP-binding site [chemical binding]; other site 550542007786 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 550542007787 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 550542007788 Peptidase family U32; Region: Peptidase_U32; pfam01136 550542007789 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 550542007790 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 550542007791 Peptidase family U32; Region: Peptidase_U32; pfam01136 550542007792 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 550542007793 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 550542007794 S-adenosylmethionine binding site [chemical binding]; other site 550542007795 YceG-like family; Region: YceG; pfam02618 550542007796 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 550542007797 dimerization interface [polypeptide binding]; other site 550542007798 hypothetical protein; Provisional; Region: PRK13678 550542007799 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 550542007800 hypothetical protein; Provisional; Region: PRK05473 550542007801 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 550542007802 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 550542007803 motif 1; other site 550542007804 active site 550542007805 motif 2; other site 550542007806 motif 3; other site 550542007807 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 550542007808 DHHA1 domain; Region: DHHA1; pfam02272 550542007809 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 550542007810 Domain of unknown function DUF20; Region: UPF0118; pfam01594 550542007811 Protein of unknown function (DUF3918); Region: DUF3918; pfam13056 550542007812 PRC-barrel domain; Region: PRC; pfam05239 550542007813 PRC-barrel domain; Region: PRC; pfam05239 550542007814 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 550542007815 AAA domain; Region: AAA_30; pfam13604 550542007816 Family description; Region: UvrD_C_2; pfam13538 550542007817 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 550542007818 binding surface 550542007819 TPR repeat; Region: TPR_11; pfam13414 550542007820 TPR motif; other site 550542007821 TPR repeat; Region: TPR_11; pfam13414 550542007822 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 550542007823 binding surface 550542007824 TPR motif; other site 550542007825 TPR repeat; Region: TPR_11; pfam13414 550542007826 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 550542007827 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 550542007828 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 550542007829 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 550542007830 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550542007831 catalytic residue [active] 550542007832 Predicted transcriptional regulator [Transcription]; Region: COG1959 550542007833 Transcriptional regulator; Region: Rrf2; pfam02082 550542007834 recombination factor protein RarA; Reviewed; Region: PRK13342 550542007835 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 550542007836 Walker A motif; other site 550542007837 ATP binding site [chemical binding]; other site 550542007838 Walker B motif; other site 550542007839 arginine finger; other site 550542007840 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 550542007841 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550542007842 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550542007843 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 550542007844 Protein export membrane protein; Region: SecD_SecF; cl14618 550542007845 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 550542007846 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 550542007847 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 550542007848 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 550542007849 putative ATP binding site [chemical binding]; other site 550542007850 putative substrate interface [chemical binding]; other site 550542007851 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 550542007852 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 550542007853 dimer interface [polypeptide binding]; other site 550542007854 anticodon binding site; other site 550542007855 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 550542007856 homodimer interface [polypeptide binding]; other site 550542007857 motif 1; other site 550542007858 active site 550542007859 motif 2; other site 550542007860 GAD domain; Region: GAD; pfam02938 550542007861 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 550542007862 motif 3; other site 550542007863 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 550542007864 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 550542007865 dimer interface [polypeptide binding]; other site 550542007866 motif 1; other site 550542007867 active site 550542007868 motif 2; other site 550542007869 motif 3; other site 550542007870 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 550542007871 anticodon binding site; other site 550542007872 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 550542007873 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 550542007874 catalytic residue [active] 550542007875 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 550542007876 catalytic residues [active] 550542007877 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550542007878 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550542007879 peroxiredoxin; Region: AhpC; TIGR03137 550542007880 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 550542007881 dimer interface [polypeptide binding]; other site 550542007882 decamer (pentamer of dimers) interface [polypeptide binding]; other site 550542007883 catalytic triad [active] 550542007884 peroxidatic and resolving cysteines [active] 550542007885 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 550542007886 putative active site [active] 550542007887 dimerization interface [polypeptide binding]; other site 550542007888 putative tRNAtyr binding site [nucleotide binding]; other site 550542007889 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 550542007890 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550542007891 Zn2+ binding site [ion binding]; other site 550542007892 Mg2+ binding site [ion binding]; other site 550542007893 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 550542007894 synthetase active site [active] 550542007895 NTP binding site [chemical binding]; other site 550542007896 metal binding site [ion binding]; metal-binding site 550542007897 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 550542007898 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 550542007899 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550542007900 active site 550542007901 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 550542007902 DHH family; Region: DHH; pfam01368 550542007903 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 550542007904 DHHA1 domain; Region: DHHA1; pfam02272 550542007905 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; pfam10141 550542007906 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 550542007907 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 550542007908 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 550542007909 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 550542007910 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 550542007911 Protein export membrane protein; Region: SecD_SecF; pfam02355 550542007912 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 550542007913 stage V sporulation protein B; Region: spore_V_B; TIGR02900 550542007914 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 550542007915 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 550542007916 Preprotein translocase subunit; Region: YajC; pfam02699 550542007917 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 550542007918 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 550542007919 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 550542007920 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 550542007921 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 550542007922 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 550542007923 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 550542007924 Walker A motif; other site 550542007925 ATP binding site [chemical binding]; other site 550542007926 Walker B motif; other site 550542007927 arginine finger; other site 550542007928 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 550542007929 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 550542007930 RuvA N terminal domain; Region: RuvA_N; pfam01330 550542007931 Bypass of Forespore C, N terminal; Region: BOFC_N; pfam08977 550542007932 BofC C-terminal domain; Region: BofC_C; pfam08955 550542007933 hypothetical protein; Validated; Region: PRK00110 550542007934 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 550542007935 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 550542007936 NAD synthetase; Provisional; Region: PRK13980 550542007937 homodimer interface [polypeptide binding]; other site 550542007938 NAD binding pocket [chemical binding]; other site 550542007939 ATP binding pocket [chemical binding]; other site 550542007940 Mg binding site [ion binding]; other site 550542007941 active-site loop [active] 550542007942 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 550542007943 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 550542007944 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542007945 quinolinate synthetase; Provisional; Region: PRK09375 550542007946 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK08072 550542007947 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 550542007948 dimerization interface [polypeptide binding]; other site 550542007949 active site 550542007950 L-aspartate oxidase; Provisional; Region: PRK08071 550542007951 L-aspartate oxidase; Provisional; Region: PRK06175 550542007952 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 550542007953 cysteine desulfurase; Provisional; Region: PRK02948 550542007954 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 550542007955 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550542007956 catalytic residue [active] 550542007957 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 550542007958 HTH domain; Region: HTH_11; pfam08279 550542007959 3H domain; Region: 3H; pfam02829 550542007960 prephenate dehydratase; Provisional; Region: PRK11898 550542007961 Prephenate dehydratase; Region: PDT; pfam00800 550542007962 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 550542007963 putative L-Phe binding site [chemical binding]; other site 550542007964 hypothetical protein; Provisional; Region: PRK04435 550542007965 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 550542007966 GTPase CgtA; Reviewed; Region: obgE; PRK12297 550542007967 GTP1/OBG; Region: GTP1_OBG; pfam01018 550542007968 Obg GTPase; Region: Obg; cd01898 550542007969 G1 box; other site 550542007970 GTP/Mg2+ binding site [chemical binding]; other site 550542007971 Switch I region; other site 550542007972 G2 box; other site 550542007973 G3 box; other site 550542007974 Switch II region; other site 550542007975 G4 box; other site 550542007976 G5 box; other site 550542007977 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 550542007978 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 550542007979 hypothetical protein; Provisional; Region: PRK14553 550542007980 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 550542007981 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 550542007982 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 550542007983 Peptidase family M50; Region: Peptidase_M50; pfam02163 550542007984 active site 550542007985 putative substrate binding region [chemical binding]; other site 550542007986 Peptidase family M23; Region: Peptidase_M23; pfam01551 550542007987 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 550542007988 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 550542007989 Switch I; other site 550542007990 Switch II; other site 550542007991 septum formation inhibitor; Reviewed; Region: minC; PRK00513 550542007992 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 550542007993 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 550542007994 rod shape-determining protein MreC; Provisional; Region: PRK13922 550542007995 rod shape-determining protein MreC; Region: MreC; pfam04085 550542007996 rod shape-determining protein MreB; Provisional; Region: PRK13927 550542007997 MreB and similar proteins; Region: MreB_like; cd10225 550542007998 nucleotide binding site [chemical binding]; other site 550542007999 Mg binding site [ion binding]; other site 550542008000 putative protofilament interaction site [polypeptide binding]; other site 550542008001 RodZ interaction site [polypeptide binding]; other site 550542008002 hypothetical protein; Reviewed; Region: PRK00024 550542008003 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 550542008004 helix-hairpin-helix signature motif; other site 550542008005 active site 550542008006 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 550542008007 MPN+ (JAMM) motif; other site 550542008008 Zinc-binding site [ion binding]; other site 550542008009 Maf-like protein; Region: Maf; pfam02545 550542008010 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 550542008011 active site 550542008012 dimer interface [polypeptide binding]; other site 550542008013 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 550542008014 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 550542008015 Competence protein A; Region: Competence_A; pfam11104 550542008016 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 550542008017 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 550542008018 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 550542008019 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 550542008020 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 550542008021 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 550542008022 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 550542008023 Mitochondrial ribosomal death-associated protein 3; Region: DAP3; pfam10236 550542008024 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 550542008025 Walker A motif; other site 550542008026 ATP binding site [chemical binding]; other site 550542008027 Walker B motif; other site 550542008028 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 550542008029 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 550542008030 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 550542008031 Walker A motif; other site 550542008032 ATP binding site [chemical binding]; other site 550542008033 Walker B motif; other site 550542008034 VanW like protein; Region: VanW; pfam04294 550542008035 G5 domain; Region: G5; pfam07501 550542008036 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 550542008037 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 550542008038 metal ion-dependent adhesion site (MIDAS); other site 550542008039 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 550542008040 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 550542008041 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 550542008042 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 550542008043 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 550542008044 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 550542008045 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 550542008046 active site 550542008047 HIGH motif; other site 550542008048 nucleotide binding site [chemical binding]; other site 550542008049 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 550542008050 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 550542008051 active site 550542008052 KMSKS motif; other site 550542008053 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 550542008054 tRNA binding surface [nucleotide binding]; other site 550542008055 anticodon binding site; other site 550542008056 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 550542008057 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 550542008058 stage VI sporulation protein D; Region: spore_VI_D; TIGR02907 550542008059 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542008060 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 550542008061 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 550542008062 inhibitor-cofactor binding pocket; inhibition site 550542008063 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542008064 catalytic residue [active] 550542008065 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 550542008066 dimer interface [polypeptide binding]; other site 550542008067 active site 550542008068 Schiff base residues; other site 550542008069 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 550542008070 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 550542008071 active site 550542008072 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 550542008073 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 550542008074 domain interfaces; other site 550542008075 active site 550542008076 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 550542008077 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 550542008078 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 550542008079 tRNA; other site 550542008080 putative tRNA binding site [nucleotide binding]; other site 550542008081 putative NADP binding site [chemical binding]; other site 550542008082 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 550542008083 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 550542008084 G1 box; other site 550542008085 GTP/Mg2+ binding site [chemical binding]; other site 550542008086 Switch I region; other site 550542008087 G2 box; other site 550542008088 G3 box; other site 550542008089 Switch II region; other site 550542008090 G4 box; other site 550542008091 G5 box; other site 550542008092 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 550542008093 Found in ATP-dependent protease La (LON); Region: LON; smart00464 550542008094 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 550542008095 Walker A motif; other site 550542008096 ATP binding site [chemical binding]; other site 550542008097 Walker B motif; other site 550542008098 arginine finger; other site 550542008099 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 550542008100 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 550542008101 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 550542008102 Walker A motif; other site 550542008103 ATP binding site [chemical binding]; other site 550542008104 Walker B motif; other site 550542008105 arginine finger; other site 550542008106 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 550542008107 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 550542008108 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 550542008109 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 550542008110 Walker A motif; other site 550542008111 ATP binding site [chemical binding]; other site 550542008112 Walker B motif; other site 550542008113 arginine finger; other site 550542008114 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 550542008115 trigger factor; Provisional; Region: tig; PRK01490 550542008116 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 550542008117 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 550542008118 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 550542008119 binding surface 550542008120 Tetratricopeptide repeat; Region: TPR_16; pfam13432 550542008121 TPR motif; other site 550542008122 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 550542008123 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 550542008124 substrate binding site [chemical binding]; other site 550542008125 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 550542008126 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 550542008127 substrate binding site [chemical binding]; other site 550542008128 ligand binding site [chemical binding]; other site 550542008129 tartrate dehydrogenase; Region: TTC; TIGR02089 550542008130 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 550542008131 2-isopropylmalate synthase; Validated; Region: PRK00915 550542008132 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 550542008133 active site 550542008134 catalytic residues [active] 550542008135 metal binding site [ion binding]; metal-binding site 550542008136 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 550542008137 ketol-acid reductoisomerase; Provisional; Region: PRK05479 550542008138 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 550542008139 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 550542008140 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 550542008141 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 550542008142 putative valine binding site [chemical binding]; other site 550542008143 dimer interface [polypeptide binding]; other site 550542008144 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 550542008145 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 550542008146 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 550542008147 PYR/PP interface [polypeptide binding]; other site 550542008148 dimer interface [polypeptide binding]; other site 550542008149 TPP binding site [chemical binding]; other site 550542008150 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 550542008151 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 550542008152 TPP-binding site [chemical binding]; other site 550542008153 dimer interface [polypeptide binding]; other site 550542008154 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 550542008155 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 550542008156 homodimer interface [polypeptide binding]; other site 550542008157 substrate-cofactor binding pocket; other site 550542008158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542008159 catalytic residue [active] 550542008160 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 550542008161 active site 550542008162 metal binding site [ion binding]; metal-binding site 550542008163 homotetramer interface [polypeptide binding]; other site 550542008164 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 550542008165 active site 550542008166 dimerization interface [polypeptide binding]; other site 550542008167 ribonuclease PH; Reviewed; Region: rph; PRK00173 550542008168 Ribonuclease PH; Region: RNase_PH_bact; cd11362 550542008169 hexamer interface [polypeptide binding]; other site 550542008170 active site 550542008171 Spore germination protein [General function prediction only]; Region: COG5401 550542008172 Sporulation and spore germination; Region: Germane; pfam10646 550542008173 Sporulation and spore germination; Region: Germane; pfam10646 550542008174 glutamate racemase; Provisional; Region: PRK00865 550542008175 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 550542008176 MarR family; Region: MarR; pfam01047 550542008177 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 550542008178 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 550542008179 DNA binding residues [nucleotide binding] 550542008180 dimerization interface [polypeptide binding]; other site 550542008181 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 550542008182 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 550542008183 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 550542008184 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 550542008185 L-aspartate oxidase; Provisional; Region: PRK06175 550542008186 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 550542008187 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 550542008188 putative Iron-sulfur protein interface [polypeptide binding]; other site 550542008189 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 550542008190 proximal heme binding site [chemical binding]; other site 550542008191 distal heme binding site [chemical binding]; other site 550542008192 putative dimer interface [polypeptide binding]; other site 550542008193 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 550542008194 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 550542008195 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 550542008196 GIY-YIG motif/motif A; other site 550542008197 active site 550542008198 catalytic site [active] 550542008199 putative DNA binding site [nucleotide binding]; other site 550542008200 metal binding site [ion binding]; metal-binding site 550542008201 UvrB/uvrC motif; Region: UVR; pfam02151 550542008202 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 550542008203 Iron permease FTR1 family; Region: FTR1; cl00475 550542008204 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 550542008205 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 550542008206 Ligand binding site; other site 550542008207 Putative Catalytic site; other site 550542008208 DXD motif; other site 550542008209 Sulfatase; Region: Sulfatase; cl17466 550542008210 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 550542008211 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550542008212 NAD(P) binding site [chemical binding]; other site 550542008213 active site 550542008214 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 550542008215 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 550542008216 catalytic residues [active] 550542008217 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 550542008218 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 550542008219 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 550542008220 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 550542008221 Ligand binding site [chemical binding]; other site 550542008222 Electron transfer flavoprotein domain; Region: ETF; pfam01012 550542008223 enoyl-CoA hydratase; Provisional; Region: PRK07658 550542008224 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 550542008225 substrate binding site [chemical binding]; other site 550542008226 oxyanion hole (OAH) forming residues; other site 550542008227 trimer interface [polypeptide binding]; other site 550542008228 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 550542008229 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550542008230 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550542008231 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 550542008232 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 550542008233 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 550542008234 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 550542008235 acyl-activating enzyme (AAE) consensus motif; other site 550542008236 putative AMP binding site [chemical binding]; other site 550542008237 putative active site [active] 550542008238 putative CoA binding site [chemical binding]; other site 550542008239 Predicted membrane protein [Function unknown]; Region: COG3766 550542008240 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 550542008241 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 550542008242 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 550542008243 MutS domain III; Region: MutS_III; pfam05192 550542008244 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 550542008245 Walker A/P-loop; other site 550542008246 ATP binding site [chemical binding]; other site 550542008247 Q-loop/lid; other site 550542008248 ABC transporter signature motif; other site 550542008249 Walker B; other site 550542008250 D-loop; other site 550542008251 H-loop/switch region; other site 550542008252 Smr domain; Region: Smr; pfam01713 550542008253 hypothetical protein; Provisional; Region: PRK08609 550542008254 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 550542008255 active site 550542008256 primer binding site [nucleotide binding]; other site 550542008257 NTP binding site [chemical binding]; other site 550542008258 metal binding triad [ion binding]; metal-binding site 550542008259 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 550542008260 active site 550542008261 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 550542008262 Colicin V production protein; Region: Colicin_V; pfam02674 550542008263 cell division protein ZapA; Provisional; Region: PRK14126 550542008264 ribonuclease HIII; Provisional; Region: PRK00996 550542008265 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 550542008266 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 550542008267 RNA/DNA hybrid binding site [nucleotide binding]; other site 550542008268 active site 550542008269 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 550542008270 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 550542008271 potential catalytic triad [active] 550542008272 conserved cys residue [active] 550542008273 MMPL family; Region: MMPL; pfam03176 550542008274 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 550542008275 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 550542008276 MarR family; Region: MarR_2; pfam12802 550542008277 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 550542008278 Alkaline phosphatase homologues; Region: alkPPc; smart00098 550542008279 active site 550542008280 dimer interface [polypeptide binding]; other site 550542008281 camphor resistance protein CrcB; Provisional; Region: PRK14205 550542008282 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 550542008283 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 550542008284 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 550542008285 DNA binding domain, excisionase family; Region: excise; TIGR01764 550542008286 PBP superfamily domain; Region: PBP_like; pfam12727 550542008287 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 550542008288 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 550542008289 putative tRNA-binding site [nucleotide binding]; other site 550542008290 B3/4 domain; Region: B3_4; pfam03483 550542008291 tRNA synthetase B5 domain; Region: B5; smart00874 550542008292 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 550542008293 dimer interface [polypeptide binding]; other site 550542008294 motif 1; other site 550542008295 motif 3; other site 550542008296 motif 2; other site 550542008297 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 550542008298 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 550542008299 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 550542008300 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 550542008301 dimer interface [polypeptide binding]; other site 550542008302 motif 1; other site 550542008303 active site 550542008304 motif 2; other site 550542008305 motif 3; other site 550542008306 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 550542008307 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 550542008308 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 550542008309 methionine sulfoxide reductase A; Provisional; Region: PRK14054 550542008310 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 550542008311 active site 550542008312 NTP binding site [chemical binding]; other site 550542008313 metal binding triad [ion binding]; metal-binding site 550542008314 antibiotic binding site [chemical binding]; other site 550542008315 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 550542008316 small acid-soluble spore protein SspI; Provisional; Region: PRK02955 550542008317 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 550542008318 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 550542008319 oligomer interface [polypeptide binding]; other site 550542008320 active site 550542008321 metal binding site [ion binding]; metal-binding site 550542008322 dUTPase; Region: dUTPase_2; pfam08761 550542008323 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 550542008324 active site 550542008325 homodimer interface [polypeptide binding]; other site 550542008326 metal binding site [ion binding]; metal-binding site 550542008327 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 550542008328 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 550542008329 23S rRNA binding site [nucleotide binding]; other site 550542008330 L21 binding site [polypeptide binding]; other site 550542008331 L13 binding site [polypeptide binding]; other site 550542008332 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 550542008333 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 550542008334 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 550542008335 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 550542008336 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 550542008337 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 550542008338 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 550542008339 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 550542008340 active site 550542008341 dimer interface [polypeptide binding]; other site 550542008342 motif 1; other site 550542008343 motif 2; other site 550542008344 motif 3; other site 550542008345 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 550542008346 anticodon binding site; other site 550542008347 putative sporulation protein YtxC; Region: spo_ytxC; TIGR02834 550542008348 primosomal protein DnaI; Reviewed; Region: PRK08939 550542008349 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 550542008350 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 550542008351 Walker A motif; other site 550542008352 ATP binding site [chemical binding]; other site 550542008353 Walker B motif; other site 550542008354 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 550542008355 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 550542008356 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 550542008357 ATP cone domain; Region: ATP-cone; pfam03477 550542008358 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 550542008359 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 550542008360 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 550542008361 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 550542008362 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 550542008363 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 550542008364 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 550542008365 CoA-binding site [chemical binding]; other site 550542008366 ATP-binding [chemical binding]; other site 550542008367 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 550542008368 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 550542008369 DNA binding site [nucleotide binding] 550542008370 catalytic residue [active] 550542008371 H2TH interface [polypeptide binding]; other site 550542008372 putative catalytic residues [active] 550542008373 turnover-facilitating residue; other site 550542008374 intercalation triad [nucleotide binding]; other site 550542008375 8OG recognition residue [nucleotide binding]; other site 550542008376 putative reading head residues; other site 550542008377 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 550542008378 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 550542008379 DNA polymerase I; Provisional; Region: PRK05755 550542008380 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 550542008381 active site 550542008382 metal binding site 1 [ion binding]; metal-binding site 550542008383 putative 5' ssDNA interaction site; other site 550542008384 metal binding site 3; metal-binding site 550542008385 metal binding site 2 [ion binding]; metal-binding site 550542008386 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 550542008387 putative DNA binding site [nucleotide binding]; other site 550542008388 putative metal binding site [ion binding]; other site 550542008389 DEDDy 3'-5' exonuclease domain of family-A DNA polymerases; Region: DNA_polA_exo; cd06128 550542008390 active site 550542008391 catalytic site [active] 550542008392 substrate binding site [chemical binding]; other site 550542008393 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 550542008394 active site 550542008395 DNA binding site [nucleotide binding] 550542008396 catalytic site [active] 550542008397 HAMP domain; Region: HAMP; pfam00672 550542008398 dimerization interface [polypeptide binding]; other site 550542008399 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 550542008400 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 550542008401 putative active site [active] 550542008402 heme pocket [chemical binding]; other site 550542008403 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 550542008404 dimer interface [polypeptide binding]; other site 550542008405 phosphorylation site [posttranslational modification] 550542008406 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 550542008407 ATP binding site [chemical binding]; other site 550542008408 Mg2+ binding site [ion binding]; other site 550542008409 G-X-G motif; other site 550542008410 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550542008411 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 550542008412 active site 550542008413 phosphorylation site [posttranslational modification] 550542008414 intermolecular recognition site; other site 550542008415 dimerization interface [polypeptide binding]; other site 550542008416 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 550542008417 DNA binding site [nucleotide binding] 550542008418 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 550542008419 active site 2 [active] 550542008420 active site 1 [active] 550542008421 malate dehydrogenase; Reviewed; Region: PRK06223 550542008422 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 550542008423 NAD(P) binding site [chemical binding]; other site 550542008424 dimer interface [polypeptide binding]; other site 550542008425 tetramer (dimer of dimers) interface [polypeptide binding]; other site 550542008426 substrate binding site [chemical binding]; other site 550542008427 isocitrate dehydrogenase; Reviewed; Region: PRK07006 550542008428 isocitrate dehydrogenase; Validated; Region: PRK07362 550542008429 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 550542008430 dimer interface [polypeptide binding]; other site 550542008431 Citrate synthase; Region: Citrate_synt; pfam00285 550542008432 active site 550542008433 citrylCoA binding site [chemical binding]; other site 550542008434 oxalacetate/citrate binding site [chemical binding]; other site 550542008435 coenzyme A binding site [chemical binding]; other site 550542008436 catalytic triad [active] 550542008437 Protein of unknown function (DUF441); Region: DUF441; pfam04284 550542008438 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 550542008439 pyruvate kinase; Provisional; Region: PRK06354 550542008440 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 550542008441 domain interfaces; other site 550542008442 active site 550542008443 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 550542008444 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 550542008445 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 550542008446 active site 550542008447 ADP/pyrophosphate binding site [chemical binding]; other site 550542008448 dimerization interface [polypeptide binding]; other site 550542008449 allosteric effector site; other site 550542008450 fructose-1,6-bisphosphate binding site; other site 550542008451 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 550542008452 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 550542008453 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 550542008454 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 550542008455 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 550542008456 Transcriptional regulators [Transcription]; Region: FadR; COG2186 550542008457 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550542008458 DNA-binding site [nucleotide binding]; DNA binding site 550542008459 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06920 550542008460 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 550542008461 active site 550542008462 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 550542008463 generic binding surface II; other site 550542008464 generic binding surface I; other site 550542008465 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 550542008466 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 550542008467 DHH family; Region: DHH; pfam01368 550542008468 DHHA1 domain; Region: DHHA1; pfam02272 550542008469 YtpI-like protein; Region: YtpI; pfam14007 550542008470 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 550542008471 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550542008472 DNA-binding site [nucleotide binding]; DNA binding site 550542008473 DRTGG domain; Region: DRTGG; pfam07085 550542008474 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 550542008475 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 550542008476 active site 2 [active] 550542008477 active site 1 [active] 550542008478 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 550542008479 metal-dependent hydrolase; Provisional; Region: PRK00685 550542008480 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 550542008481 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 550542008482 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 550542008483 active site 550542008484 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 550542008485 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 550542008486 hexamer interface [polypeptide binding]; other site 550542008487 ligand binding site [chemical binding]; other site 550542008488 putative active site [active] 550542008489 NAD(P) binding site [chemical binding]; other site 550542008490 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 550542008491 classical (c) SDRs; Region: SDR_c; cd05233 550542008492 NAD(P) binding site [chemical binding]; other site 550542008493 active site 550542008494 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 550542008495 Ligand Binding Site [chemical binding]; other site 550542008496 argininosuccinate lyase; Provisional; Region: PRK00855 550542008497 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 550542008498 active sites [active] 550542008499 tetramer interface [polypeptide binding]; other site 550542008500 argininosuccinate synthase; Provisional; Region: PRK13820 550542008501 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 550542008502 ANP binding site [chemical binding]; other site 550542008503 Substrate Binding Site II [chemical binding]; other site 550542008504 Substrate Binding Site I [chemical binding]; other site 550542008505 acetyl-CoA synthetase; Provisional; Region: PRK04319 550542008506 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 550542008507 active site 550542008508 acyl-activating enzyme (AAE) consensus motif; other site 550542008509 putative CoA binding site [chemical binding]; other site 550542008510 AMP binding site [chemical binding]; other site 550542008511 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 550542008512 dimerization interface [polypeptide binding]; other site 550542008513 putative DNA binding site [nucleotide binding]; other site 550542008514 putative Zn2+ binding site [ion binding]; other site 550542008515 hypothetical protein; Provisional; Region: PRK07206 550542008516 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 550542008517 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 550542008518 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 550542008519 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 550542008520 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550542008521 putative substrate translocation pore; other site 550542008522 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 550542008523 MPT binding site; other site 550542008524 trimer interface [polypeptide binding]; other site 550542008525 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 550542008526 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 550542008527 DNA binding residues [nucleotide binding] 550542008528 dimerization interface [polypeptide binding]; other site 550542008529 Ribonucleotide Reductase R2-like protein, Mn/Fe-binding domain; Region: RNRR2_Rv0233_like; cd07911 550542008530 active site 550542008531 diiron metal binding site [ion binding]; other site 550542008532 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 550542008533 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 550542008534 NAD(P) binding site [chemical binding]; other site 550542008535 catalytic residues [active] 550542008536 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 550542008537 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 550542008538 NAD binding site [chemical binding]; other site 550542008539 catalytic Zn binding site [ion binding]; other site 550542008540 substrate binding site [chemical binding]; other site 550542008541 structural Zn binding site [ion binding]; other site 550542008542 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 550542008543 ABC1 family; Region: ABC1; cl17513 550542008544 Transmembrane proteins 14C; Region: Tmemb_14; cl02346 550542008545 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 550542008546 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 550542008547 dimer interface [polypeptide binding]; other site 550542008548 active site 550542008549 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 550542008550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550542008551 NAD(P) binding site [chemical binding]; other site 550542008552 active site 550542008553 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 550542008554 enoyl-CoA hydratase; Provisional; Region: PRK06688 550542008555 substrate binding site [chemical binding]; other site 550542008556 oxyanion hole (OAH) forming residues; other site 550542008557 trimer interface [polypeptide binding]; other site 550542008558 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550542008559 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 550542008560 active site 550542008561 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550542008562 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 550542008563 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 550542008564 active site 550542008565 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 550542008566 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 550542008567 acyl-activating enzyme (AAE) consensus motif; other site 550542008568 putative AMP binding site [chemical binding]; other site 550542008569 putative active site [active] 550542008570 putative CoA binding site [chemical binding]; other site 550542008571 SCP-2 sterol transfer family; Region: SCP2; pfam02036 550542008572 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 550542008573 propionate/acetate kinase; Provisional; Region: PRK12379 550542008574 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 550542008575 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 550542008576 S-adenosylmethionine binding site [chemical binding]; other site 550542008577 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 550542008578 dimer interface [polypeptide binding]; other site 550542008579 catalytic triad [active] 550542008580 peroxidatic and resolving cysteines [active] 550542008581 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 550542008582 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 550542008583 RDD family; Region: RDD; pfam06271 550542008584 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 550542008585 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 550542008586 tandem repeat interface [polypeptide binding]; other site 550542008587 oligomer interface [polypeptide binding]; other site 550542008588 active site residues [active] 550542008589 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03501 550542008590 ATP-NAD kinase; Region: NAD_kinase; pfam01513 550542008591 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 550542008592 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 550542008593 active site 550542008594 acyl-activating enzyme (AAE) consensus motif; other site 550542008595 putative CoA binding site [chemical binding]; other site 550542008596 AMP binding site [chemical binding]; other site 550542008597 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 550542008598 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 550542008599 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 550542008600 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 550542008601 Ligand Binding Site [chemical binding]; other site 550542008602 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 550542008603 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 550542008604 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550542008605 catalytic residue [active] 550542008606 septation ring formation regulator EzrA; Provisional; Region: PRK04778 550542008607 histidinol-phosphatase; Reviewed; Region: PRK08123 550542008608 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 550542008609 active site 550542008610 dimer interface [polypeptide binding]; other site 550542008611 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 550542008612 GAF domain; Region: GAF_2; pfam13185 550542008613 GAF domain; Region: GAF_3; pfam13492 550542008614 GAF domain; Region: GAF_2; pfam13185 550542008615 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 550542008616 GAF domain; Region: GAF_3; pfam13492 550542008617 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550542008618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550542008619 metal binding site [ion binding]; metal-binding site 550542008620 active site 550542008621 I-site; other site 550542008622 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 550542008623 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 550542008624 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 550542008625 RNA binding surface [nucleotide binding]; other site 550542008626 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 550542008627 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 550542008628 active site 550542008629 HIGH motif; other site 550542008630 dimer interface [polypeptide binding]; other site 550542008631 KMSKS motif; other site 550542008632 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 550542008633 RNA binding surface [nucleotide binding]; other site 550542008634 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 550542008635 Transglycosylase; Region: Transgly; pfam00912 550542008636 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 550542008637 acetyl-CoA synthetase; Provisional; Region: PRK04319 550542008638 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 550542008639 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 550542008640 active site 550542008641 acyl-activating enzyme (AAE) consensus motif; other site 550542008642 putative CoA binding site [chemical binding]; other site 550542008643 AMP binding site [chemical binding]; other site 550542008644 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550542008645 Coenzyme A binding pocket [chemical binding]; other site 550542008646 FOG: CBS domain [General function prediction only]; Region: COG0517 550542008647 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 550542008648 C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB; Region: ACT_AcuB; cd04883 550542008649 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 550542008650 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 550542008651 active site 550542008652 Zn binding site [ion binding]; other site 550542008653 DDE superfamily endonuclease; Region: DDE_5; cl17874 550542008654 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542008655 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 550542008656 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542008657 DDE superfamily endonuclease; Region: DDE_5; cl17874 550542008658 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542008659 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 550542008660 H+ Antiporter protein; Region: 2A0121; TIGR00900 550542008661 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 550542008662 putative substrate translocation pore; other site 550542008663 catabolite control protein A; Region: ccpA; TIGR01481 550542008664 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 550542008665 DNA binding site [nucleotide binding] 550542008666 domain linker motif; other site 550542008667 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 550542008668 dimerization interface [polypeptide binding]; other site 550542008669 effector binding site; other site 550542008670 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 550542008671 Chorismate mutase type II; Region: CM_2; cl00693 550542008672 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 550542008673 Protein of unknown function (DUF2847); Region: DUF2847; pfam11009 550542008674 Bacterial protein of unknown function (DUF948); Region: DUF948; pfam06103 550542008675 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 550542008676 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 550542008677 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 550542008678 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 550542008679 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 550542008680 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 550542008681 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 550542008682 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 550542008683 putative tRNA-binding site [nucleotide binding]; other site 550542008684 hypothetical protein; Provisional; Region: PRK13668 550542008685 NTPase; Reviewed; Region: PRK03114 550542008686 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 550542008687 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 550542008688 oligomer interface [polypeptide binding]; other site 550542008689 active site 550542008690 metal binding site [ion binding]; metal-binding site 550542008691 Predicted small secreted protein [Function unknown]; Region: COG5584 550542008692 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 550542008693 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 550542008694 S-adenosylmethionine binding site [chemical binding]; other site 550542008695 YtzH-like protein; Region: YtzH; pfam14165 550542008696 Phosphotransferase enzyme family; Region: APH; pfam01636 550542008697 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 550542008698 active site 550542008699 substrate binding site [chemical binding]; other site 550542008700 ATP binding site [chemical binding]; other site 550542008701 pullulanase, type I; Region: pulA_typeI; TIGR02104 550542008702 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 550542008703 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 550542008704 Ca binding site [ion binding]; other site 550542008705 active site 550542008706 catalytic site [active] 550542008707 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 550542008708 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 550542008709 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 550542008710 sugar efflux transporter; Region: 2A0120; TIGR00899 550542008711 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 550542008712 putative substrate translocation pore; other site 550542008713 dipeptidase PepV; Reviewed; Region: PRK07318 550542008714 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 550542008715 active site 550542008716 metal binding site [ion binding]; metal-binding site 550542008717 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 550542008718 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 550542008719 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 550542008720 RNA binding surface [nucleotide binding]; other site 550542008721 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 550542008722 active site 550542008723 uracil binding [chemical binding]; other site 550542008724 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 550542008725 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 550542008726 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 550542008727 HI0933-like protein; Region: HI0933_like; pfam03486 550542008728 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550542008729 Protein of unknown function (DUF2758); Region: DUF2758; pfam10957 550542008730 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 550542008731 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 550542008732 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 550542008733 Thermolysin metallopeptidase, catalytic domain; Region: Peptidase_M4; pfam01447 550542008734 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 550542008735 active site 550542008736 Zn binding site [ion binding]; other site 550542008737 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 550542008738 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 550542008739 non-specific DNA binding site [nucleotide binding]; other site 550542008740 salt bridge; other site 550542008741 sequence-specific DNA binding site [nucleotide binding]; other site 550542008742 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 550542008743 binding surface 550542008744 TPR motif; other site 550542008745 Tetratricopeptide repeat; Region: TPR_12; pfam13424 550542008746 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 550542008747 active site residue [active] 550542008748 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 550542008749 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 550542008750 HIGH motif; other site 550542008751 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 550542008752 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 550542008753 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 550542008754 active site 550542008755 KMSKS motif; other site 550542008756 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 550542008757 tRNA binding surface [nucleotide binding]; other site 550542008758 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 550542008759 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550542008760 putative substrate translocation pore; other site 550542008761 Protein of unknown function (DUF2524); Region: DUF2524; pfam10732 550542008762 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 550542008763 S-adenosylmethionine binding site [chemical binding]; other site 550542008764 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 550542008765 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 550542008766 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 550542008767 trimer interface [polypeptide binding]; other site 550542008768 putative metal binding site [ion binding]; other site 550542008769 S-adenosylmethionine synthetase; Validated; Region: PRK05250 550542008770 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 550542008771 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 550542008772 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 550542008773 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 550542008774 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 550542008775 active site 550542008776 substrate-binding site [chemical binding]; other site 550542008777 metal-binding site [ion binding] 550542008778 ATP binding site [chemical binding]; other site 550542008779 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 550542008780 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542008781 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 550542008782 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 550542008783 Protein of unknown function (DUF2584); Region: DUF2584; pfam10763 550542008784 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 550542008785 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 550542008786 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 550542008787 Replication-relaxation; Region: Replic_Relax; pfam13814 550542008788 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 550542008789 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 550542008790 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 550542008791 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 550542008792 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 550542008793 non-specific DNA binding site [nucleotide binding]; other site 550542008794 salt bridge; other site 550542008795 sequence-specific DNA binding site [nucleotide binding]; other site 550542008796 Short C-terminal domain; Region: SHOCT; pfam09851 550542008797 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 550542008798 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 550542008799 active site 550542008800 metal binding site [ion binding]; metal-binding site 550542008801 Sporulation related domain; Region: SPOR; pfam05036 550542008802 Phage-related holin (Lysis protein) [General function prediction only]; Region: COG4824 550542008803 Phage tail protein; Region: Sipho_tail; pfam05709 550542008804 membrane protein P6; Region: PHA01399 550542008805 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 550542008806 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 550542008807 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 550542008808 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 550542008809 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 550542008810 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 550542008811 oligomerization interface [polypeptide binding]; other site 550542008812 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 550542008813 Phage capsid family; Region: Phage_capsid; pfam05065 550542008814 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 550542008815 oligomer interface [polypeptide binding]; other site 550542008816 Clp protease; Region: CLP_protease; pfam00574 550542008817 active site residues [active] 550542008818 Phage portal protein; Region: Phage_portal; pfam04860 550542008819 Phage-related protein [Function unknown]; Region: COG4695 550542008820 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 550542008821 Phage terminase, small subunit; Region: Terminase_4; pfam05119 550542008822 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 550542008823 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 550542008824 active site 550542008825 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 550542008826 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 550542008827 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 550542008828 dUTPase; Region: dUTPase_2; pfam08761 550542008829 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 550542008830 active site 550542008831 homodimer interface [polypeptide binding]; other site 550542008832 metal binding site [ion binding]; metal-binding site 550542008833 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 550542008834 hypothetical protein; Validated; Region: PRK08116 550542008835 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 550542008836 Transcriptional regulator; Region: Rrf2; cl17282 550542008837 recombination and repair protein RecT; Reviewed; Region: recT; PRK09846 550542008838 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 550542008839 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 550542008840 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 550542008841 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 550542008842 non-specific DNA binding site [nucleotide binding]; other site 550542008843 salt bridge; other site 550542008844 sequence-specific DNA binding site [nucleotide binding]; other site 550542008845 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 550542008846 non-specific DNA binding site [nucleotide binding]; other site 550542008847 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 550542008848 salt bridge; other site 550542008849 sequence-specific DNA binding site [nucleotide binding]; other site 550542008850 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 550542008851 Catalytic site [active] 550542008852 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 550542008853 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 550542008854 catalytic residues [active] 550542008855 catalytic nucleophile [active] 550542008856 Recombinase; Region: Recombinase; pfam07508 550542008857 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 550542008858 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 550542008859 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 550542008860 Walker A/P-loop; other site 550542008861 ATP binding site [chemical binding]; other site 550542008862 Q-loop/lid; other site 550542008863 ABC transporter signature motif; other site 550542008864 Walker B; other site 550542008865 D-loop; other site 550542008866 H-loop/switch region; other site 550542008867 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 550542008868 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 550542008869 dimer interface [polypeptide binding]; other site 550542008870 conserved gate region; other site 550542008871 putative PBP binding loops; other site 550542008872 ABC-ATPase subunit interface; other site 550542008873 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 550542008874 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 550542008875 nudix motif; other site 550542008876 Holin family; Region: Phage_holin_4; pfam05105 550542008877 Ferritin-like domain; Region: Ferritin; pfam00210 550542008878 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 550542008879 dimerization interface [polypeptide binding]; other site 550542008880 DPS ferroxidase diiron center [ion binding]; other site 550542008881 ion pore; other site 550542008882 Tumour necrosis factor receptor superfamily member 19; Region: RELT; pfam12606 550542008883 S-ribosylhomocysteinase; Provisional; Region: PRK02260 550542008884 Haemolytic domain; Region: Haemolytic; pfam01809 550542008885 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 550542008886 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 550542008887 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 550542008888 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 550542008889 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 550542008890 metal binding site [ion binding]; metal-binding site 550542008891 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 550542008892 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 550542008893 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 550542008894 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 550542008895 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 550542008896 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 550542008897 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 550542008898 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 550542008899 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 550542008900 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 550542008901 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 550542008902 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 550542008903 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 550542008904 acyl-activating enzyme (AAE) consensus motif; other site 550542008905 putative AMP binding site [chemical binding]; other site 550542008906 putative active site [active] 550542008907 putative CoA binding site [chemical binding]; other site 550542008908 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 550542008909 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 550542008910 substrate binding site [chemical binding]; other site 550542008911 oxyanion hole (OAH) forming residues; other site 550542008912 trimer interface [polypeptide binding]; other site 550542008913 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 550542008914 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 550542008915 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 550542008916 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 550542008917 dimer interface [polypeptide binding]; other site 550542008918 tetramer interface [polypeptide binding]; other site 550542008919 PYR/PP interface [polypeptide binding]; other site 550542008920 TPP binding site [chemical binding]; other site 550542008921 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 550542008922 TPP-binding site; other site 550542008923 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 550542008924 chorismate binding enzyme; Region: Chorismate_bind; cl10555 550542008925 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 550542008926 UbiA prenyltransferase family; Region: UbiA; pfam01040 550542008927 regulatory protein, yteA family; Region: bacill_yteA; TIGR02890 550542008928 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 550542008929 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 550542008930 Probable transposase; Region: OrfB_IS605; pfam01385 550542008931 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 550542008932 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 550542008933 homodimer interface [polypeptide binding]; other site 550542008934 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 550542008935 active site pocket [active] 550542008936 glycogen synthase; Provisional; Region: glgA; PRK00654 550542008937 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 550542008938 ADP-binding pocket [chemical binding]; other site 550542008939 homodimer interface [polypeptide binding]; other site 550542008940 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 550542008941 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 550542008942 ligand binding site; other site 550542008943 oligomer interface; other site 550542008944 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 550542008945 dimer interface [polypeptide binding]; other site 550542008946 N-terminal domain interface [polypeptide binding]; other site 550542008947 sulfate 1 binding site; other site 550542008948 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 550542008949 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 550542008950 ligand binding site; other site 550542008951 oligomer interface; other site 550542008952 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 550542008953 dimer interface [polypeptide binding]; other site 550542008954 N-terminal domain interface [polypeptide binding]; other site 550542008955 sulfate 1 binding site; other site 550542008956 glycogen branching enzyme; Provisional; Region: PRK12313 550542008957 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 550542008958 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 550542008959 active site 550542008960 catalytic site [active] 550542008961 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 550542008962 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 550542008963 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 550542008964 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 550542008965 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 550542008966 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 550542008967 ABC-ATPase subunit interface; other site 550542008968 dimer interface [polypeptide binding]; other site 550542008969 putative PBP binding regions; other site 550542008970 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 550542008971 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 550542008972 ABC-ATPase subunit interface; other site 550542008973 dimer interface [polypeptide binding]; other site 550542008974 putative PBP binding regions; other site 550542008975 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 550542008976 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 550542008977 siderophore binding site; other site 550542008978 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 550542008979 Protein of unknown function (DUF3221); Region: DUF3221; pfam11518 550542008980 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 550542008981 homodimer interaction site [polypeptide binding]; other site 550542008982 cofactor binding site; other site 550542008983 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542008984 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542008985 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542008986 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 550542008987 transglutaminase; Provisional; Region: tgl; PRK03187 550542008988 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 550542008989 EamA-like transporter family; Region: EamA; pfam00892 550542008990 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 550542008991 MgtC family; Region: MgtC; pfam02308 550542008992 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 550542008993 Staphylococcal nuclease homologues; Region: SNc; smart00318 550542008994 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 550542008995 Catalytic site; other site 550542008996 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 550542008997 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550542008998 Coenzyme A binding pocket [chemical binding]; other site 550542008999 Small acid-soluble spore protein H family; Region: SspH; pfam08141 550542009000 Ion transport protein; Region: Ion_trans; pfam00520 550542009001 Ion channel; Region: Ion_trans_2; pfam07885 550542009002 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 550542009003 TrkA-N domain; Region: TrkA_N; pfam02254 550542009004 YugN-like family; Region: YugN; pfam08868 550542009005 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542009006 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542009007 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542009008 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542009009 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 550542009010 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 550542009011 active site 550542009012 dimer interface [polypeptide binding]; other site 550542009013 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 550542009014 dimer interface [polypeptide binding]; other site 550542009015 active site 550542009016 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 550542009017 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 550542009018 dimer interface [polypeptide binding]; other site 550542009019 active site 550542009020 metal binding site [ion binding]; metal-binding site 550542009021 Domain of unknown function (DUF378); Region: DUF378; pfam04070 550542009022 general stress protein 13; Validated; Region: PRK08059 550542009023 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 550542009024 RNA binding site [nucleotide binding]; other site 550542009025 hypothetical protein; Validated; Region: PRK07682 550542009026 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 550542009027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542009028 homodimer interface [polypeptide binding]; other site 550542009029 catalytic residue [active] 550542009030 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 550542009031 AsnC family; Region: AsnC_trans_reg; pfam01037 550542009032 Domain of unknown function (DUF1871); Region: DUF1871; pfam08958 550542009033 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 550542009034 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 550542009035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542009036 homodimer interface [polypeptide binding]; other site 550542009037 catalytic residue [active] 550542009038 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 550542009039 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 550542009040 E-class dimer interface [polypeptide binding]; other site 550542009041 P-class dimer interface [polypeptide binding]; other site 550542009042 active site 550542009043 Cu2+ binding site [ion binding]; other site 550542009044 Zn2+ binding site [ion binding]; other site 550542009045 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 550542009046 active site 550542009047 catalytic site [active] 550542009048 substrate binding site [chemical binding]; other site 550542009049 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 550542009050 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 550542009051 transmembrane helices; other site 550542009052 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 550542009053 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 550542009054 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 550542009055 multifunctional aminopeptidase A; Provisional; Region: PRK00913 550542009056 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 550542009057 interface (dimer of trimers) [polypeptide binding]; other site 550542009058 Substrate-binding/catalytic site; other site 550542009059 Zn-binding sites [ion binding]; other site 550542009060 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 550542009061 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 550542009062 cobalamin binding residues [chemical binding]; other site 550542009063 putative BtuC binding residues; other site 550542009064 dimer interface [polypeptide binding]; other site 550542009065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 550542009066 Putative membrane protein; Region: YuiB; pfam14068 550542009067 chaperone protein DnaJ; Provisional; Region: PRK14279 550542009068 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 550542009069 nudix motif; other site 550542009070 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 550542009071 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550542009072 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 550542009073 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550542009074 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550542009075 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 550542009076 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 550542009077 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 550542009078 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 550542009079 hypothetical protein; Provisional; Region: PRK13669 550542009080 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 550542009081 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550542009082 Protein of unknown function (DUF1462); Region: DUF1462; pfam07315 550542009083 NifU-like domain; Region: NifU; pfam01106 550542009084 homoserine kinase; Provisional; Region: PRK01212 550542009085 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 550542009086 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 550542009087 threonine synthase; Reviewed; Region: PRK06721 550542009088 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 550542009089 homodimer interface [polypeptide binding]; other site 550542009090 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542009091 catalytic residue [active] 550542009092 homoserine dehydrogenase; Provisional; Region: PRK06349 550542009093 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 550542009094 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 550542009095 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 550542009096 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 550542009097 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 550542009098 dimerization interface [polypeptide binding]; other site 550542009099 ligand binding site [chemical binding]; other site 550542009100 NADP binding site [chemical binding]; other site 550542009101 catalytic site [active] 550542009102 spore coat protein YutH; Region: spore_yutH; TIGR02905 550542009103 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 550542009104 tetramer interfaces [polypeptide binding]; other site 550542009105 binuclear metal-binding site [ion binding]; other site 550542009106 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 550542009107 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 550542009108 active site 550542009109 motif I; other site 550542009110 motif II; other site 550542009111 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 550542009112 Uncharacterized conserved protein [Function unknown]; Region: COG2445 550542009113 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 550542009114 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 550542009115 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 550542009116 lipoyl synthase; Provisional; Region: PRK05481 550542009117 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 550542009118 FeS/SAM binding site; other site 550542009119 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 550542009120 Peptidase family M23; Region: Peptidase_M23; pfam01551 550542009121 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 550542009122 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 550542009123 Walker A/P-loop; other site 550542009124 ATP binding site [chemical binding]; other site 550542009125 Q-loop/lid; other site 550542009126 ABC transporter signature motif; other site 550542009127 Walker B; other site 550542009128 D-loop; other site 550542009129 H-loop/switch region; other site 550542009130 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 550542009131 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 550542009132 Walker A/P-loop; other site 550542009133 ATP binding site [chemical binding]; other site 550542009134 Q-loop/lid; other site 550542009135 ABC transporter signature motif; other site 550542009136 Walker B; other site 550542009137 D-loop; other site 550542009138 H-loop/switch region; other site 550542009139 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 550542009140 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 550542009141 TM-ABC transporter signature motif; other site 550542009142 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550542009143 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 550542009144 TM-ABC transporter signature motif; other site 550542009145 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 550542009146 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 550542009147 putative ligand binding site [chemical binding]; other site 550542009148 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 550542009149 Uncharacterized conserved protein [Function unknown]; Region: COG3377 550542009150 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 550542009151 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 550542009152 active site 550542009153 metal binding site [ion binding]; metal-binding site 550542009154 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 550542009155 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 550542009156 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 550542009157 Protein of unknown function DUF72; Region: DUF72; pfam01904 550542009158 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 550542009159 transposase; Provisional; Region: PRK06526 550542009160 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 550542009161 Walker A motif; other site 550542009162 ATP binding site [chemical binding]; other site 550542009163 Walker B motif; other site 550542009164 arginine finger; other site 550542009165 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 550542009166 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 550542009167 non-specific DNA binding site [nucleotide binding]; other site 550542009168 salt bridge; other site 550542009169 sequence-specific DNA binding site [nucleotide binding]; other site 550542009170 Integrase core domain; Region: rve; pfam00665 550542009171 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 550542009172 FeS assembly protein SufB; Region: sufB; TIGR01980 550542009173 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 550542009174 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 550542009175 trimerization site [polypeptide binding]; other site 550542009176 active site 550542009177 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 550542009178 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 550542009179 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550542009180 catalytic residue [active] 550542009181 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 550542009182 FeS assembly protein SufD; Region: sufD; TIGR01981 550542009183 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 550542009184 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 550542009185 Walker A/P-loop; other site 550542009186 ATP binding site [chemical binding]; other site 550542009187 Q-loop/lid; other site 550542009188 ABC transporter signature motif; other site 550542009189 Walker B; other site 550542009190 D-loop; other site 550542009191 H-loop/switch region; other site 550542009192 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 550542009193 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 550542009194 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 550542009195 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 550542009196 dimer interface [polypeptide binding]; other site 550542009197 conserved gate region; other site 550542009198 ABC-ATPase subunit interface; other site 550542009199 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 550542009200 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 550542009201 Walker A/P-loop; other site 550542009202 ATP binding site [chemical binding]; other site 550542009203 Q-loop/lid; other site 550542009204 ABC transporter signature motif; other site 550542009205 Walker B; other site 550542009206 D-loop; other site 550542009207 H-loop/switch region; other site 550542009208 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 550542009209 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 550542009210 catalytic residues [active] 550542009211 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 550542009212 putative active site [active] 550542009213 putative metal binding site [ion binding]; other site 550542009214 Protein of unknown function (DUF2553); Region: DUF2553; pfam10830 550542009215 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 550542009216 lipoyl attachment site [posttranslational modification]; other site 550542009217 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 550542009218 ArsC family; Region: ArsC; pfam03960 550542009219 putative ArsC-like catalytic residues; other site 550542009220 putative TRX-like catalytic residues [active] 550542009221 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 550542009222 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550542009223 active site 550542009224 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 550542009225 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 550542009226 dimer interface [polypeptide binding]; other site 550542009227 active site 550542009228 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 550542009229 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 550542009230 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 550542009231 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 550542009232 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 550542009233 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 550542009234 substrate binding site [chemical binding]; other site 550542009235 oxyanion hole (OAH) forming residues; other site 550542009236 trimer interface [polypeptide binding]; other site 550542009237 YuzL-like protein; Region: YuzL; pfam14115 550542009238 Proline dehydrogenase; Region: Pro_dh; cl03282 550542009239 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542009240 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550542009241 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550542009242 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550542009243 Coat F domain; Region: Coat_F; pfam07875 550542009244 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 550542009245 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 550542009246 inhibitor-cofactor binding pocket; inhibition site 550542009247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542009248 catalytic residue [active] 550542009249 AAA domain; Region: AAA_26; pfam13500 550542009250 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 550542009251 BioY family; Region: BioY; pfam02632 550542009252 pyruvate kinase; Provisional; Region: PRK14725 550542009253 active site 550542009254 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 550542009255 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550542009256 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 550542009257 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 550542009258 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 550542009259 Walker A/P-loop; other site 550542009260 ATP binding site [chemical binding]; other site 550542009261 Q-loop/lid; other site 550542009262 ABC transporter signature motif; other site 550542009263 Walker B; other site 550542009264 D-loop; other site 550542009265 H-loop/switch region; other site 550542009266 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 550542009267 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 550542009268 Walker A/P-loop; other site 550542009269 ATP binding site [chemical binding]; other site 550542009270 Q-loop/lid; other site 550542009271 ABC transporter signature motif; other site 550542009272 Walker B; other site 550542009273 D-loop; other site 550542009274 H-loop/switch region; other site 550542009275 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 550542009276 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 550542009277 TM-ABC transporter signature motif; other site 550542009278 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550542009279 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 550542009280 TM-ABC transporter signature motif; other site 550542009281 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 550542009282 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 550542009283 putative ligand binding site [chemical binding]; other site 550542009284 Transcriptional regulators [Transcription]; Region: FadR; COG2186 550542009285 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550542009286 DNA-binding site [nucleotide binding]; DNA binding site 550542009287 FCD domain; Region: FCD; pfam07729 550542009288 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 550542009289 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 550542009290 NAD binding site [chemical binding]; other site 550542009291 catalytic residues [active] 550542009292 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 550542009293 putative substrate binding pocket [chemical binding]; other site 550542009294 trimer interface [polypeptide binding]; other site 550542009295 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 550542009296 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 550542009297 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 550542009298 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 550542009299 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 550542009300 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 550542009301 dimer interface [polypeptide binding]; other site 550542009302 active site 550542009303 catalytic residue [active] 550542009304 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 550542009305 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 550542009306 tetramer interface [polypeptide binding]; other site 550542009307 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 550542009308 tetramer interface [polypeptide binding]; other site 550542009309 active site 550542009310 metal binding site [ion binding]; metal-binding site 550542009311 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-1; TIGR02309 550542009312 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 550542009313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550542009314 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550542009315 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 550542009316 dimerization interface [polypeptide binding]; other site 550542009317 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 550542009318 dimanganese center [ion binding]; other site 550542009319 Protein of unknown function (DUF2642); Region: DUF2642; pfam10842 550542009320 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 550542009321 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 550542009322 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 550542009323 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 550542009324 DNA binding residues [nucleotide binding] 550542009325 dimerization interface [polypeptide binding]; other site 550542009326 Staygreen protein; Region: Staygreen; pfam12638 550542009327 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 550542009328 SmpB-tmRNA interface; other site 550542009329 ribonuclease R; Region: RNase_R; TIGR02063 550542009330 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 550542009331 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 550542009332 RNB domain; Region: RNB; pfam00773 550542009333 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 550542009334 RNA binding site [nucleotide binding]; other site 550542009335 Esterase/lipase [General function prediction only]; Region: COG1647 550542009336 Protein of unknown function (DUF677); Region: DUF677; pfam05055 550542009337 Preprotein translocase SecG subunit; Region: SecG; pfam03840 550542009338 Carboxylesterase family; Region: COesterase; pfam00135 550542009339 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 550542009340 substrate binding pocket [chemical binding]; other site 550542009341 catalytic triad [active] 550542009342 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 550542009343 enolase; Provisional; Region: eno; PRK00077 550542009344 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 550542009345 dimer interface [polypeptide binding]; other site 550542009346 metal binding site [ion binding]; metal-binding site 550542009347 substrate binding pocket [chemical binding]; other site 550542009348 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 550542009349 phosphoglyceromutase; Provisional; Region: PRK05434 550542009350 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 550542009351 triosephosphate isomerase; Provisional; Region: PRK14565 550542009352 substrate binding site [chemical binding]; other site 550542009353 dimer interface [polypeptide binding]; other site 550542009354 catalytic triad [active] 550542009355 Phosphoglycerate kinase; Region: PGK; pfam00162 550542009356 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 550542009357 substrate binding site [chemical binding]; other site 550542009358 hinge regions; other site 550542009359 ADP binding site [chemical binding]; other site 550542009360 catalytic site [active] 550542009361 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 550542009362 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 550542009363 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 550542009364 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 550542009365 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 550542009366 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 550542009367 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 550542009368 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 550542009369 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 550542009370 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 550542009371 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 550542009372 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 550542009373 oligomer interface [polypeptide binding]; other site 550542009374 active site residues [active] 550542009375 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 550542009376 dimerization domain swap beta strand [polypeptide binding]; other site 550542009377 regulatory protein interface [polypeptide binding]; other site 550542009378 active site 550542009379 regulatory phosphorylation site [posttranslational modification]; other site 550542009380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 550542009381 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 550542009382 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 550542009383 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 550542009384 phosphate binding site [ion binding]; other site 550542009385 putative substrate binding pocket [chemical binding]; other site 550542009386 dimer interface [polypeptide binding]; other site 550542009387 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 550542009388 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 550542009389 putative active site [active] 550542009390 nucleotide binding site [chemical binding]; other site 550542009391 nudix motif; other site 550542009392 putative metal binding site [ion binding]; other site 550542009393 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 550542009394 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550542009395 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550542009396 TPR repeat; Region: TPR_11; pfam13414 550542009397 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 550542009398 binding surface 550542009399 TPR motif; other site 550542009400 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 550542009401 binding surface 550542009402 TPR motif; other site 550542009403 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 550542009404 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 550542009405 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 550542009406 metal binding site [ion binding]; metal-binding site 550542009407 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 550542009408 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 550542009409 substrate binding site [chemical binding]; other site 550542009410 glutamase interaction surface [polypeptide binding]; other site 550542009411 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 550542009412 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 550542009413 catalytic residues [active] 550542009414 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 550542009415 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 550542009416 putative active site [active] 550542009417 oxyanion strand; other site 550542009418 catalytic triad [active] 550542009419 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 550542009420 putative active site pocket [active] 550542009421 4-fold oligomerization interface [polypeptide binding]; other site 550542009422 metal binding residues [ion binding]; metal-binding site 550542009423 3-fold/trimer interface [polypeptide binding]; other site 550542009424 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 550542009425 histidinol dehydrogenase; Region: hisD; TIGR00069 550542009426 NAD binding site [chemical binding]; other site 550542009427 dimerization interface [polypeptide binding]; other site 550542009428 product binding site; other site 550542009429 substrate binding site [chemical binding]; other site 550542009430 zinc binding site [ion binding]; other site 550542009431 catalytic residues [active] 550542009432 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 550542009433 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 550542009434 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 550542009435 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 550542009436 dimer interface [polypeptide binding]; other site 550542009437 motif 1; other site 550542009438 active site 550542009439 motif 2; other site 550542009440 motif 3; other site 550542009441 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 550542009442 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 550542009443 putative active site [active] 550542009444 putative NTP binding site [chemical binding]; other site 550542009445 putative nucleic acid binding site [nucleotide binding]; other site 550542009446 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 550542009447 VanZ like family; Region: VanZ; pfam04892 550542009448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 550542009449 Transposase; Region: DDE_Tnp_ISL3; pfam01610 550542009450 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 550542009451 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 550542009452 trimer interface [polypeptide binding]; other site 550542009453 active site 550542009454 substrate binding site [chemical binding]; other site 550542009455 CoA binding site [chemical binding]; other site 550542009456 pyrophosphatase PpaX; Provisional; Region: PRK13288 550542009457 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 550542009458 active site 550542009459 motif I; other site 550542009460 motif II; other site 550542009461 Nucleoside recognition; Region: Gate; pfam07670 550542009462 Nucleoside recognition; Region: Gate; pfam07670 550542009463 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 550542009464 HPr kinase/phosphorylase; Provisional; Region: PRK05428 550542009465 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 550542009466 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 550542009467 Hpr binding site; other site 550542009468 active site 550542009469 homohexamer subunit interaction site [polypeptide binding]; other site 550542009470 Predicted membrane protein [Function unknown]; Region: COG1950 550542009471 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 550542009472 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 550542009473 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 550542009474 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 550542009475 excinuclease ABC subunit B; Provisional; Region: PRK05298 550542009476 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 550542009477 ATP binding site [chemical binding]; other site 550542009478 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 550542009479 nucleotide binding region [chemical binding]; other site 550542009480 ATP-binding site [chemical binding]; other site 550542009481 Ultra-violet resistance protein B; Region: UvrB; pfam12344 550542009482 Uncharacterized protein conserved in bacteria (DUF2198); Region: DUF2198; pfam09964 550542009483 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 550542009484 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 550542009485 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 550542009486 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 550542009487 DNA binding residues [nucleotide binding] 550542009488 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 550542009489 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 550542009490 Ligand binding site; other site 550542009491 Putative Catalytic site; other site 550542009492 DXD motif; other site 550542009493 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 550542009494 C-terminal peptidase (prc); Region: prc; TIGR00225 550542009495 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 550542009496 protein binding site [polypeptide binding]; other site 550542009497 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 550542009498 Catalytic dyad [active] 550542009499 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 550542009500 Pirin-related protein [General function prediction only]; Region: COG1741 550542009501 Pirin; Region: Pirin; pfam02678 550542009502 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 550542009503 YusW-like protein; Region: YusW; pfam14039 550542009504 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 550542009505 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 550542009506 DNA binding residues [nucleotide binding] 550542009507 dimer interface [polypeptide binding]; other site 550542009508 mercury binding site [ion binding]; other site 550542009509 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 550542009510 metal-binding site [ion binding] 550542009511 mercuric reductase; Region: MerA; TIGR02053 550542009512 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550542009513 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550542009514 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 550542009515 MerE protein; Region: MerE; cl04911 550542009516 Protein-interacting V-domain of mammalian Alix and related domains; Region: V_Alix_like; cl14654 550542009517 Translation initiation factor eIF3 subunit; Region: eIF3_subunit; pfam08597 550542009518 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 550542009519 Peptidase family M23; Region: Peptidase_M23; pfam01551 550542009520 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 550542009521 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 550542009522 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 550542009523 ATP-binding cassette domain of the cell division transporter; Region: ABC_FtsE_transporter; cd03292 550542009524 Walker A/P-loop; other site 550542009525 ATP binding site [chemical binding]; other site 550542009526 Q-loop/lid; other site 550542009527 ABC transporter signature motif; other site 550542009528 Walker B; other site 550542009529 D-loop; other site 550542009530 H-loop/switch region; other site 550542009531 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 550542009532 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 550542009533 Uncharacterized conserved protein [Function unknown]; Region: COG1284 550542009534 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 550542009535 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 550542009536 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 550542009537 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 550542009538 peptide chain release factor 2; Validated; Region: prfB; PRK00578 550542009539 This domain is found in peptide chain release factors; Region: PCRF; smart00937 550542009540 RF-1 domain; Region: RF-1; pfam00472 550542009541 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 550542009542 DEAD/DEAH box helicase; Region: DEAD; pfam00270 550542009543 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 550542009544 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 550542009545 nucleotide binding region [chemical binding]; other site 550542009546 ATP-binding site [chemical binding]; other site 550542009547 Uncharacterized conserved protein (DUF2036); Region: DUF2036; pfam09724 550542009548 SEC-C motif; Region: SEC-C; pfam02810 550542009549 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 550542009550 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 550542009551 30S subunit binding site; other site 550542009552 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 550542009553 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550542009554 Zn2+ binding site [ion binding]; other site 550542009555 Mg2+ binding site [ion binding]; other site 550542009556 Flagellar protein FliT; Region: FliT; pfam05400 550542009557 flagellar protein FliS; Validated; Region: fliS; PRK05685 550542009558 flagellar capping protein; Validated; Region: fliD; PRK07737 550542009559 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 550542009560 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 550542009561 flagellar protein FlaG; Provisional; Region: PRK07738 550542009562 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 550542009563 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 550542009564 inhibitor-cofactor binding pocket; inhibition site 550542009565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542009566 catalytic residue [active] 550542009567 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 550542009568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550542009569 NAD(P) binding site [chemical binding]; other site 550542009570 active site 550542009571 pseudaminic acid synthase; Region: PseI; TIGR03586 550542009572 NeuB family; Region: NeuB; pfam03102 550542009573 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 550542009574 NeuB binding interface [polypeptide binding]; other site 550542009575 putative substrate binding site [chemical binding]; other site 550542009576 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 550542009577 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 550542009578 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 550542009579 ligand binding site; other site 550542009580 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 550542009581 HAD superfamily (subfamily IA) hydrolase, TIGR02253; Region: CTE7 550542009582 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 550542009583 motif II; other site 550542009584 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 550542009585 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 550542009586 UDP-galactopyranose mutase; Region: GLF; pfam03275 550542009587 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 550542009588 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 550542009589 Probable Catalytic site; other site 550542009590 metal-binding site 550542009591 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 550542009592 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 550542009593 Probable Catalytic site; other site 550542009594 metal-binding site 550542009595 Methyltransferase domain; Region: Methyltransf_24; pfam13578 550542009596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 550542009597 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 550542009598 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 550542009599 NAD(P) binding site [chemical binding]; other site 550542009600 homodimer interface [polypeptide binding]; other site 550542009601 substrate binding site [chemical binding]; other site 550542009602 active site 550542009603 flagellin; Provisional; Region: PRK12804 550542009604 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 550542009605 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 550542009606 carbon storage regulator; Provisional; Region: PRK01712 550542009607 flagellar assembly protein FliW; Provisional; Region: PRK13285 550542009608 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 550542009609 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 550542009610 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 550542009611 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 550542009612 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 550542009613 FlgN protein; Region: FlgN; pfam05130 550542009614 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 550542009615 flagellar operon protein TIGR03826; Region: YvyF 550542009616 Protein of unknown function (DUF327); Region: DUF327; pfam03885 550542009617 flagellin; Provisional; Region: PRK12804 550542009618 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 550542009619 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 550542009620 Flagellar protein FliS; Region: FliS; cl00654 550542009621 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 550542009622 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 550542009623 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550542009624 active site 550542009625 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 550542009626 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 550542009627 ATP binding site [chemical binding]; other site 550542009628 putative Mg++ binding site [ion binding]; other site 550542009629 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 550542009630 nucleotide binding region [chemical binding]; other site 550542009631 ATP-binding site [chemical binding]; other site 550542009632 EDD domain protein, DegV family; Region: DegV; TIGR00762 550542009633 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 550542009634 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 550542009635 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 550542009636 active site 550542009637 phosphorylation site [posttranslational modification] 550542009638 intermolecular recognition site; other site 550542009639 dimerization interface [polypeptide binding]; other site 550542009640 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 550542009641 DNA binding residues [nucleotide binding] 550542009642 dimerization interface [polypeptide binding]; other site 550542009643 Sensor protein DegS; Region: DegS; pfam05384 550542009644 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 550542009645 Histidine kinase; Region: HisKA_3; pfam07730 550542009646 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 550542009647 ATP binding site [chemical binding]; other site 550542009648 Mg2+ binding site [ion binding]; other site 550542009649 G-X-G motif; other site 550542009650 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 550542009651 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 550542009652 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 550542009653 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 550542009654 Bacterial SH3 domain; Region: SH3_3; pfam08239 550542009655 Bacterial SH3 domain; Region: SH3_3; pfam08239 550542009656 Bacterial SH3 domain homologues; Region: SH3b; smart00287 550542009657 Bacterial SH3 domain; Region: SH3_3; pfam08239 550542009658 Bacterial SH3 domain; Region: SH3_3; pfam08239 550542009659 Bacterial SH3 domain homologues; Region: SH3b; smart00287 550542009660 Bacterial SH3 domain homologues; Region: SH3b; smart00287 550542009661 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 550542009662 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 550542009663 active site 550542009664 metal binding site [ion binding]; metal-binding site 550542009665 Bacterial SH3 domain; Region: SH3_3; cl17532 550542009666 Bacterial SH3 domain homologues; Region: SH3b; smart00287 550542009667 Stage II sporulation protein; Region: SpoIID; pfam08486 550542009668 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 550542009669 putative glycosyl transferase; Provisional; Region: PRK10307 550542009670 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 550542009671 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 550542009672 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 550542009673 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 550542009674 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 550542009675 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 550542009676 active site 550542009677 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 550542009678 homodimer interface [polypeptide binding]; other site 550542009679 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 550542009680 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 550542009681 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 550542009682 putative trimer interface [polypeptide binding]; other site 550542009683 putative CoA binding site [chemical binding]; other site 550542009684 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 550542009685 putative trimer interface [polypeptide binding]; other site 550542009686 putative active site [active] 550542009687 putative substrate binding site [chemical binding]; other site 550542009688 putative CoA binding site [chemical binding]; other site 550542009689 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 550542009690 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 550542009691 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 550542009692 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 550542009693 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 550542009694 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 550542009695 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 550542009696 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 550542009697 inhibitor-cofactor binding pocket; inhibition site 550542009698 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550542009699 catalytic residue [active] 550542009700 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 550542009701 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 550542009702 Mg++ binding site [ion binding]; other site 550542009703 putative catalytic motif [active] 550542009704 substrate binding site [chemical binding]; other site 550542009705 preprotein translocase subunit SecA; Reviewed; Region: PRK09200 550542009706 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 550542009707 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 550542009708 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 550542009709 nucleotide binding region [chemical binding]; other site 550542009710 ATP-binding site [chemical binding]; other site 550542009711 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 550542009712 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 550542009713 C-terminal peptidase (prc); Region: prc; TIGR00225 550542009714 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 550542009715 protein binding site [polypeptide binding]; other site 550542009716 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 550542009717 Catalytic dyad [active] 550542009718 Bacterial Ig-like domain; Region: Big_5; pfam13205 550542009719 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 550542009720 Flagellar filament outer layer protein Flaa; Region: FlaA; pfam04620 550542009721 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 550542009722 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 550542009723 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 550542009724 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 550542009725 X25 domain of Bacillus acidopullulyticus pullulanase and similar proteins; Region: X25_BaPul_like; cd12962 550542009726 X25 domain of Bacillus acidopullulyticus pullulanase and similar proteins; Region: X25_BaPul_like; cd12962 550542009727 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 550542009728 homodimer interface [polypeptide binding]; other site 550542009729 maltodextrin glucosidase; Provisional; Region: PRK10785 550542009730 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 550542009731 active site 550542009732 homodimer interface [polypeptide binding]; other site 550542009733 catalytic site [active] 550542009734 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 550542009735 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 550542009736 Interdomain contacts; other site 550542009737 Cytokine receptor motif; other site 550542009738 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 550542009739 Starch binding domain; Region: CBM_2; smart01065 550542009740 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 550542009741 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 550542009742 active site 550542009743 Na/Ca binding site [ion binding]; other site 550542009744 catalytic site [active] 550542009745 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 550542009746 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 550542009747 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 550542009748 active site 550542009749 metal binding site [ion binding]; metal-binding site 550542009750 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 550542009751 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 550542009752 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 550542009753 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 550542009754 Uncharacterized conserved protein [Function unknown]; Region: COG4127 550542009755 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542009756 Transposase IS4; Region: DDE_Tnp_1_7; pfam13843 550542009757 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 550542009758 Transposase; Region: DDE_Tnp_ISL3; pfam01610 550542009759 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 550542009760 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 550542009761 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 550542009762 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 550542009763 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 550542009764 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 550542009765 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 550542009766 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 550542009767 NlpC/P60 family; Region: NLPC_P60; pfam00877 550542009768 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 550542009769 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 550542009770 non-specific DNA binding site [nucleotide binding]; other site 550542009771 salt bridge; other site 550542009772 sequence-specific DNA binding site [nucleotide binding]; other site 550542009773 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 550542009774 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 550542009775 dimer interface [polypeptide binding]; other site 550542009776 ssDNA binding site [nucleotide binding]; other site 550542009777 tetramer (dimer of dimers) interface [polypeptide binding]; other site 550542009778 YwpF-like protein; Region: YwpF; pfam14183 550542009779 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 550542009780 active site 550542009781 catalytic site [active] 550542009782 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 550542009783 aspartate kinase; Reviewed; Region: PRK09034 550542009784 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 550542009785 putative catalytic residues [active] 550542009786 putative nucleotide binding site [chemical binding]; other site 550542009787 putative aspartate binding site [chemical binding]; other site 550542009788 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 550542009789 allosteric regulatory residue; other site 550542009790 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 550542009791 Protein of unknown function (DUF1284); Region: DUF1284; pfam06935 550542009792 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 550542009793 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 550542009794 NAD(P) binding site [chemical binding]; other site 550542009795 catalytic residues [active] 550542009796 Protein of unknown function (DUF779); Region: DUF779; pfam05610 550542009797 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 550542009798 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550542009799 putative substrate translocation pore; other site 550542009800 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 550542009801 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550542009802 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550542009803 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 550542009804 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 550542009805 nucleotide binding site [chemical binding]; other site 550542009806 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 550542009807 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 550542009808 dimer interface [polypeptide binding]; other site 550542009809 conserved gate region; other site 550542009810 putative PBP binding loops; other site 550542009811 ABC-ATPase subunit interface; other site 550542009812 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 550542009813 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 550542009814 dimer interface [polypeptide binding]; other site 550542009815 conserved gate region; other site 550542009816 putative PBP binding loops; other site 550542009817 ABC-ATPase subunit interface; other site 550542009818 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 550542009819 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 550542009820 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 550542009821 Response regulator receiver domain; Region: Response_reg; pfam00072 550542009822 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 550542009823 active site 550542009824 phosphorylation site [posttranslational modification] 550542009825 intermolecular recognition site; other site 550542009826 dimerization interface [polypeptide binding]; other site 550542009827 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550542009828 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 550542009829 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550542009830 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 550542009831 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 550542009832 dimerization interface [polypeptide binding]; other site 550542009833 Histidine kinase; Region: His_kinase; pfam06580 550542009834 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 550542009835 ATP binding site [chemical binding]; other site 550542009836 Mg2+ binding site [ion binding]; other site 550542009837 G-X-G motif; other site 550542009838 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 550542009839 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 550542009840 ligand binding site [chemical binding]; other site 550542009841 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 550542009842 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 550542009843 NAD binding site [chemical binding]; other site 550542009844 sugar binding site [chemical binding]; other site 550542009845 divalent metal binding site [ion binding]; other site 550542009846 tetramer (dimer of dimers) interface [polypeptide binding]; other site 550542009847 dimer interface [polypeptide binding]; other site 550542009848 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 550542009849 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 550542009850 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 550542009851 putative active site [active] 550542009852 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 550542009853 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 550542009854 Walker A/P-loop; other site 550542009855 ATP binding site [chemical binding]; other site 550542009856 Q-loop/lid; other site 550542009857 ABC transporter signature motif; other site 550542009858 Walker B; other site 550542009859 D-loop; other site 550542009860 H-loop/switch region; other site 550542009861 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 550542009862 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 550542009863 FtsX-like permease family; Region: FtsX; pfam02687 550542009864 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 550542009865 FAD binding domain; Region: FAD_binding_4; pfam01565 550542009866 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 550542009867 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 550542009868 alpha subunit interface [polypeptide binding]; other site 550542009869 TPP binding site [chemical binding]; other site 550542009870 heterodimer interface [polypeptide binding]; other site 550542009871 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 550542009872 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 550542009873 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 550542009874 TPP-binding site [chemical binding]; other site 550542009875 tetramer interface [polypeptide binding]; other site 550542009876 heterodimer interface [polypeptide binding]; other site 550542009877 phosphorylation loop region [posttranslational modification] 550542009878 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 550542009879 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 550542009880 E3 interaction surface; other site 550542009881 lipoyl attachment site [posttranslational modification]; other site 550542009882 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 550542009883 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 550542009884 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 550542009885 putative metal binding site [ion binding]; other site 550542009886 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 550542009887 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 550542009888 Domain of unknown function (DUF4275); Region: DUF4275; pfam14101 550542009889 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 550542009890 Low molecular weight phosphatase family; Region: LMWPc; cd00115 550542009891 active site 550542009892 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 550542009893 arsenical-resistance protein; Region: acr3; TIGR00832 550542009894 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 550542009895 dimerization interface [polypeptide binding]; other site 550542009896 putative DNA binding site [nucleotide binding]; other site 550542009897 putative Zn2+ binding site [ion binding]; other site 550542009898 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 550542009899 PemK-like protein; Region: PemK; pfam02452 550542009900 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 550542009901 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 550542009902 ligand binding site [chemical binding]; other site 550542009903 dimerization interface [polypeptide binding]; other site 550542009904 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550542009905 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 550542009906 TM-ABC transporter signature motif; other site 550542009907 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 550542009908 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 550542009909 Walker A/P-loop; other site 550542009910 ATP binding site [chemical binding]; other site 550542009911 Q-loop/lid; other site 550542009912 ABC transporter signature motif; other site 550542009913 Walker B; other site 550542009914 D-loop; other site 550542009915 H-loop/switch region; other site 550542009916 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 550542009917 D-ribose pyranase; Provisional; Region: PRK11797 550542009918 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 550542009919 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 550542009920 substrate binding site [chemical binding]; other site 550542009921 dimer interface [polypeptide binding]; other site 550542009922 ATP binding site [chemical binding]; other site 550542009923 Transcriptional regulators [Transcription]; Region: PurR; COG1609 550542009924 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 550542009925 DNA binding site [nucleotide binding] 550542009926 domain linker motif; other site 550542009927 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 550542009928 dimerization interface [polypeptide binding]; other site 550542009929 ligand binding site [chemical binding]; other site 550542009930 sodium binding site [ion binding]; other site 550542009931 Predicted integral membrane protein [Function unknown]; Region: COG5652 550542009932 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 550542009933 Na binding site [ion binding]; other site 550542009934 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 550542009935 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 550542009936 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 550542009937 metal binding site [ion binding]; metal-binding site 550542009938 dimer interface [polypeptide binding]; other site 550542009939 amidase, hydantoinase/carbamoylase family; Region: hydantase; TIGR01879 550542009940 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 550542009941 active site 550542009942 metal binding site [ion binding]; metal-binding site 550542009943 dimer interface [polypeptide binding]; other site 550542009944 Probable transposase; Region: OrfB_IS605; pfam01385 550542009945 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 550542009946 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 550542009947 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 550542009948 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 550542009949 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 550542009950 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 550542009951 Bacterial SH3 domain homologues; Region: SH3b; smart00287 550542009952 Bacterial SH3 domain; Region: SH3_3; pfam08239 550542009953 Bacterial SH3 domain; Region: SH3_3; pfam08239 550542009954 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 550542009955 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 550542009956 active site 550542009957 metal binding site [ion binding]; metal-binding site 550542009958 SEC-C motif; Region: SEC-C; pfam02810 550542009959 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 550542009960 SEC-C motif; Region: SEC-C; pfam02810 550542009961 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 550542009962 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542009963 SEC-C motif; Region: SEC-C; pfam02810 550542009964 SEC-C motif; Region: SEC-C; pfam02810 550542009965 Uncharacterized conserved protein [Function unknown]; Region: COG4715 550542009966 SNF2 Helicase protein; Region: DUF3670; pfam12419 550542009967 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 550542009968 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 550542009969 ATP binding site [chemical binding]; other site 550542009970 putative Mg++ binding site [ion binding]; other site 550542009971 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 550542009972 nucleotide binding region [chemical binding]; other site 550542009973 ATP-binding site [chemical binding]; other site 550542009974 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 550542009975 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 550542009976 putative ADP-ribose binding site [chemical binding]; other site 550542009977 Uncharacterized conserved protein [Function unknown]; Region: COG3189 550542009978 AAA domain; Region: AAA_21; pfam13304 550542009979 AAA domain; Region: AAA_21; pfam13304 550542009980 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 550542009981 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 550542009982 active site 550542009983 tetramer interface; other site 550542009984 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 550542009985 active site 550542009986 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 550542009987 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 550542009988 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 550542009989 dimer interface [polypeptide binding]; other site 550542009990 conserved gate region; other site 550542009991 ABC-ATPase subunit interface; other site 550542009992 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 550542009993 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 550542009994 dimer interface [polypeptide binding]; other site 550542009995 conserved gate region; other site 550542009996 putative PBP binding loops; other site 550542009997 ABC-ATPase subunit interface; other site 550542009998 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 550542009999 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 550542010000 Transcriptional regulators [Transcription]; Region: PurR; COG1609 550542010001 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 550542010002 DNA binding site [nucleotide binding] 550542010003 domain linker motif; other site 550542010004 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 550542010005 putative dimerization interface [polypeptide binding]; other site 550542010006 putative ligand binding site [chemical binding]; other site 550542010007 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 550542010008 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 550542010009 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 550542010010 EamA-like transporter family; Region: EamA; pfam00892 550542010011 EamA-like transporter family; Region: EamA; pfam00892 550542010012 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 550542010013 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550542010014 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 550542010015 Helix-turn-helix domain; Region: HTH_17; pfam12728 550542010016 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 550542010017 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 550542010018 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 550542010019 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 550542010020 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 550542010021 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 550542010022 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542010023 Transposase IS4; Region: DDE_Tnp_1_7; pfam13843 550542010024 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 550542010025 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 550542010026 active site 550542010027 tetramer interface; other site 550542010028 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 550542010029 AAA domain; Region: AAA_21; pfam13304 550542010030 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 550542010031 membrane-bound transcriptional regulator LytR; Provisional; Region: PRK09379 550542010032 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 550542010033 active site 550542010034 oxyanion hole [active] 550542010035 catalytic triad [active] 550542010036 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 550542010037 Chain length determinant protein; Region: Wzz; cl15801 550542010038 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 550542010039 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 550542010040 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 550542010041 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 550542010042 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 550542010043 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 550542010044 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 550542010045 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 550542010046 rod shape-determining protein Mbl; Provisional; Region: PRK13928 550542010047 MreB and similar proteins; Region: MreB_like; cd10225 550542010048 nucleotide binding site [chemical binding]; other site 550542010049 Mg binding site [ion binding]; other site 550542010050 putative protofilament interaction site [polypeptide binding]; other site 550542010051 RodZ interaction site [polypeptide binding]; other site 550542010052 Stage III sporulation protein D; Region: SpoIIID; pfam12116 550542010053 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 550542010054 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 550542010055 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 550542010056 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 550542010057 Peptidase family M23; Region: Peptidase_M23; pfam01551 550542010058 stage II sporulation protein D; Region: spore_II_D; TIGR02870 550542010059 Stage II sporulation protein; Region: SpoIID; pfam08486 550542010060 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 550542010061 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 550542010062 hinge; other site 550542010063 active site 550542010064 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 550542010065 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 550542010066 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 550542010067 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 550542010068 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 550542010069 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 550542010070 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 550542010071 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 550542010072 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 550542010073 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 550542010074 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 550542010075 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 550542010076 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 550542010077 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 550542010078 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 550542010079 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 550542010080 NADH dehydrogenase subunit D; Provisional; Region: PRK12322 550542010081 NADH dehydrogenase subunit C; Validated; Region: PRK07735 550542010082 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 550542010083 NADH dehydrogenase subunit B; Validated; Region: PRK06411 550542010084 NADH dehydrogenase subunit A; Validated; Region: PRK07756 550542010085 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 550542010086 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 550542010087 gamma subunit interface [polypeptide binding]; other site 550542010088 epsilon subunit interface [polypeptide binding]; other site 550542010089 LBP interface [polypeptide binding]; other site 550542010090 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 550542010091 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 550542010092 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 550542010093 alpha subunit interaction interface [polypeptide binding]; other site 550542010094 Walker A motif; other site 550542010095 ATP binding site [chemical binding]; other site 550542010096 Walker B motif; other site 550542010097 inhibitor binding site; inhibition site 550542010098 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 550542010099 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 550542010100 core domain interface [polypeptide binding]; other site 550542010101 delta subunit interface [polypeptide binding]; other site 550542010102 epsilon subunit interface [polypeptide binding]; other site 550542010103 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 550542010104 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 550542010105 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 550542010106 beta subunit interaction interface [polypeptide binding]; other site 550542010107 Walker A motif; other site 550542010108 ATP binding site [chemical binding]; other site 550542010109 Walker B motif; other site 550542010110 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 550542010111 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 550542010112 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 550542010113 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 550542010114 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 550542010115 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 550542010116 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 550542010117 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 550542010118 ATP synthase I chain; Region: ATP_synt_I; cl09170 550542010119 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 550542010120 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550542010121 active site 550542010122 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 550542010123 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 550542010124 dimer interface [polypeptide binding]; other site 550542010125 active site 550542010126 glycine-pyridoxal phosphate binding site [chemical binding]; other site 550542010127 folate binding site [chemical binding]; other site 550542010128 hypothetical protein; Provisional; Region: PRK13690 550542010129 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 550542010130 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 550542010131 dimerization interface [polypeptide binding]; other site 550542010132 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550542010133 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550542010134 dimer interface [polypeptide binding]; other site 550542010135 putative CheW interface [polypeptide binding]; other site 550542010136 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 550542010137 Low molecular weight phosphatase family; Region: LMWPc; cd00115 550542010138 active site 550542010139 Predicted membrane protein [Function unknown]; Region: COG1971 550542010140 Domain of unknown function DUF; Region: DUF204; pfam02659 550542010141 Domain of unknown function DUF; Region: DUF204; pfam02659 550542010142 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 550542010143 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 550542010144 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 550542010145 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 550542010146 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 550542010147 S-adenosylmethionine binding site [chemical binding]; other site 550542010148 peptide chain release factor 1; Validated; Region: prfA; PRK00591 550542010149 This domain is found in peptide chain release factors; Region: PCRF; smart00937 550542010150 RF-1 domain; Region: RF-1; pfam00472 550542010151 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 550542010152 thymidine kinase; Provisional; Region: PRK04296 550542010153 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 550542010154 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 550542010155 transcription termination factor Rho; Provisional; Region: rho; PRK09376 550542010156 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 550542010157 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 550542010158 RNA binding site [nucleotide binding]; other site 550542010159 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 550542010160 multimer interface [polypeptide binding]; other site 550542010161 Walker A motif; other site 550542010162 ATP binding site [chemical binding]; other site 550542010163 Walker B motif; other site 550542010164 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 550542010165 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 550542010166 putative active site [active] 550542010167 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 550542010168 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 550542010169 hinge; other site 550542010170 active site 550542010171 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 550542010172 active site 550542010173 intersubunit interactions; other site 550542010174 catalytic residue [active] 550542010175 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 550542010176 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 550542010177 intersubunit interface [polypeptide binding]; other site 550542010178 active site 550542010179 zinc binding site [ion binding]; other site 550542010180 Na+ binding site [ion binding]; other site 550542010181 Response regulator receiver domain; Region: Response_reg; pfam00072 550542010182 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 550542010183 active site 550542010184 phosphorylation site [posttranslational modification] 550542010185 intermolecular recognition site; other site 550542010186 dimerization interface [polypeptide binding]; other site 550542010187 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 550542010188 CTP synthetase; Validated; Region: pyrG; PRK05380 550542010189 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 550542010190 Catalytic site [active] 550542010191 active site 550542010192 UTP binding site [chemical binding]; other site 550542010193 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 550542010194 active site 550542010195 putative oxyanion hole; other site 550542010196 catalytic triad [active] 550542010197 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 550542010198 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 550542010199 B12 binding site [chemical binding]; other site 550542010200 cobalt ligand [ion binding]; other site 550542010201 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 550542010202 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 550542010203 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 550542010204 putative active site [active] 550542010205 putative substrate binding site [chemical binding]; other site 550542010206 putative coenzyme B12 binding site [chemical binding]; other site 550542010207 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550542010208 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550542010209 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550542010210 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 550542010211 FAD binding site [chemical binding]; other site 550542010212 homotetramer interface [polypeptide binding]; other site 550542010213 substrate binding pocket [chemical binding]; other site 550542010214 catalytic base [active] 550542010215 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550542010216 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 550542010217 FAD binding site [chemical binding]; other site 550542010218 homotetramer interface [polypeptide binding]; other site 550542010219 substrate binding pocket [chemical binding]; other site 550542010220 catalytic base [active] 550542010221 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 550542010222 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 550542010223 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 550542010224 acetyl-CoA acetyltransferase; Provisional; Region: PRK08235 550542010225 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 550542010226 dimer interface [polypeptide binding]; other site 550542010227 active site 550542010228 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 550542010229 4Fe-4S binding domain; Region: Fer4; cl02805 550542010230 Cysteine-rich domain; Region: CCG; pfam02754 550542010231 Cysteine-rich domain; Region: CCG; pfam02754 550542010232 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 550542010233 PLD-like domain; Region: PLDc_2; pfam13091 550542010234 putative active site [active] 550542010235 catalytic site [active] 550542010236 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 550542010237 PLD-like domain; Region: PLDc_2; pfam13091 550542010238 putative active site [active] 550542010239 catalytic site [active] 550542010240 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 550542010241 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 550542010242 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 550542010243 active site 550542010244 HIGH motif; other site 550542010245 KMSK motif region; other site 550542010246 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 550542010247 tRNA binding surface [nucleotide binding]; other site 550542010248 anticodon binding site; other site 550542010249 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 550542010250 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 550542010251 agmatinase; Region: agmatinase; TIGR01230 550542010252 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 550542010253 putative active site [active] 550542010254 Mn binding site [ion binding]; other site 550542010255 spermidine synthase; Provisional; Region: PRK00811 550542010256 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 550542010257 Transglycosylase; Region: Transgly; pfam00912 550542010258 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 550542010259 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 550542010260 YwhD family; Region: YwhD; pfam08741 550542010261 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 550542010262 Peptidase family M50; Region: Peptidase_M50; pfam02163 550542010263 active site 550542010264 putative substrate binding region [chemical binding]; other site 550542010265 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 550542010266 active site 1 [active] 550542010267 dimer interface [polypeptide binding]; other site 550542010268 hexamer interface [polypeptide binding]; other site 550542010269 active site 2 [active] 550542010270 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 550542010271 Uncharacterized conserved protein [Function unknown]; Region: COG3465 550542010272 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 550542010273 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550542010274 Zn2+ binding site [ion binding]; other site 550542010275 Mg2+ binding site [ion binding]; other site 550542010276 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 550542010277 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 550542010278 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 550542010279 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 550542010280 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 550542010281 putative heme peroxidase; Provisional; Region: PRK12276 550542010282 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 550542010283 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 550542010284 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; pfam09671 550542010285 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 550542010286 CAT RNA binding domain; Region: CAT_RBD; smart01061 550542010287 transcriptional antiterminator BglG; Provisional; Region: PRK09772 550542010288 PRD domain; Region: PRD; pfam00874 550542010289 PRD domain; Region: PRD; pfam00874 550542010290 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 550542010291 beta-galactosidase; Region: BGL; TIGR03356 550542010292 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 550542010293 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 550542010294 active site turn [active] 550542010295 phosphorylation site [posttranslational modification] 550542010296 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 550542010297 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 550542010298 HPr interaction site; other site 550542010299 glycerol kinase (GK) interaction site [polypeptide binding]; other site 550542010300 active site 550542010301 phosphorylation site [posttranslational modification] 550542010302 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 550542010303 ligand binding site [chemical binding]; other site 550542010304 active site 550542010305 UGI interface [polypeptide binding]; other site 550542010306 catalytic site [active] 550542010307 Uncharacterized conserved protein [Function unknown]; Region: COG3339 550542010308 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 550542010309 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 550542010310 anti sigma factor interaction site; other site 550542010311 regulatory phosphorylation site [posttranslational modification]; other site 550542010312 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 550542010313 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 550542010314 ATP binding site [chemical binding]; other site 550542010315 Mg2+ binding site [ion binding]; other site 550542010316 G-X-G motif; other site 550542010317 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 550542010318 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550542010319 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 550542010320 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 550542010321 DNA binding residues [nucleotide binding] 550542010322 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 550542010323 PAS domain; Region: PAS_9; pfam13426 550542010324 putative active site [active] 550542010325 heme pocket [chemical binding]; other site 550542010326 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 550542010327 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 550542010328 PemK-like protein; Region: PemK; pfam02452 550542010329 azoreductase; Reviewed; Region: PRK00170 550542010330 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 550542010331 glycyl-tRNA synthetase; Provisional; Region: PRK04173 550542010332 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 550542010333 motif 1; other site 550542010334 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 550542010335 active site 550542010336 motif 2; other site 550542010337 motif 3; other site 550542010338 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 550542010339 anticodon binding site; other site 550542010340 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 550542010341 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 550542010342 active site 550542010343 benzoate transport; Region: 2A0115; TIGR00895 550542010344 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 550542010345 putative substrate translocation pore; other site 550542010346 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 550542010347 Transposase; Region: HTH_Tnp_1; cl17663 550542010348 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 550542010349 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 550542010350 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 550542010351 PBP superfamily domain; Region: PBP_like_2; cl17296 550542010352 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 550542010353 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 550542010354 dimer interface [polypeptide binding]; other site 550542010355 conserved gate region; other site 550542010356 putative PBP binding loops; other site 550542010357 ABC-ATPase subunit interface; other site 550542010358 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 550542010359 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 550542010360 dimer interface [polypeptide binding]; other site 550542010361 conserved gate region; other site 550542010362 putative PBP binding loops; other site 550542010363 ABC-ATPase subunit interface; other site 550542010364 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 550542010365 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 550542010366 substrate binding [chemical binding]; other site 550542010367 active site 550542010368 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 550542010369 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 550542010370 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 550542010371 active site turn [active] 550542010372 phosphorylation site [posttranslational modification] 550542010373 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 550542010374 transcriptional antiterminator BglG; Provisional; Region: PRK09772 550542010375 CAT RNA binding domain; Region: CAT_RBD; pfam03123 550542010376 PRD domain; Region: PRD; pfam00874 550542010377 PRD domain; Region: PRD; pfam00874 550542010378 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 550542010379 HPr interaction site; other site 550542010380 glycerol kinase (GK) interaction site [polypeptide binding]; other site 550542010381 active site 550542010382 phosphorylation site [posttranslational modification] 550542010383 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 550542010384 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 550542010385 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 550542010386 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 550542010387 hexamer interface [polypeptide binding]; other site 550542010388 ligand binding site [chemical binding]; other site 550542010389 putative active site [active] 550542010390 NAD(P) binding site [chemical binding]; other site 550542010391 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 550542010392 putative active site [active] 550542010393 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 550542010394 dimer interface [polypeptide binding]; other site 550542010395 substrate binding site [chemical binding]; other site 550542010396 ATP binding site [chemical binding]; other site 550542010397 Predicted amidohydrolase [General function prediction only]; Region: COG0388 550542010398 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 550542010399 putative active site [active] 550542010400 catalytic triad [active] 550542010401 putative dimer interface [polypeptide binding]; other site 550542010402 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 550542010403 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 550542010404 Na binding site [ion binding]; other site 550542010405 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 550542010406 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 550542010407 substrate binding pocket [chemical binding]; other site 550542010408 membrane-bound complex binding site; other site 550542010409 hinge residues; other site 550542010410 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 550542010411 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 550542010412 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 550542010413 dimer interface [polypeptide binding]; other site 550542010414 conserved gate region; other site 550542010415 putative PBP binding loops; other site 550542010416 ABC-ATPase subunit interface; other site 550542010417 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 550542010418 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 550542010419 Walker A/P-loop; other site 550542010420 ATP binding site [chemical binding]; other site 550542010421 Q-loop/lid; other site 550542010422 ABC transporter signature motif; other site 550542010423 Walker B; other site 550542010424 D-loop; other site 550542010425 H-loop/switch region; other site 550542010426 cytochrome aa3 quinol oxidase, subunit IV; Region: QoxD; TIGR02901 550542010427 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 550542010428 Subunit I/III interface [polypeptide binding]; other site 550542010429 Subunit III/IV interface [polypeptide binding]; other site 550542010430 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 550542010431 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 550542010432 D-pathway; other site 550542010433 Putative ubiquinol binding site [chemical binding]; other site 550542010434 Low-spin heme (heme b) binding site [chemical binding]; other site 550542010435 Putative water exit pathway; other site 550542010436 Binuclear center (heme o3/CuB) [ion binding]; other site 550542010437 K-pathway; other site 550542010438 Putative proton exit pathway; other site 550542010439 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 550542010440 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 550542010441 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 550542010442 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 550542010443 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 550542010444 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 550542010445 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 550542010446 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 550542010447 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 550542010448 [2Fe-2S] cluster binding site [ion binding]; other site 550542010449 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 550542010450 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 550542010451 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 550542010452 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550542010453 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550542010454 metal binding site [ion binding]; metal-binding site 550542010455 active site 550542010456 I-site; other site 550542010457 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 550542010458 CxxH/CxxC protein, BA_5709 family; Region: CxxH_BA5709; TIGR04129 550542010459 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 550542010460 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 550542010461 protein binding site [polypeptide binding]; other site 550542010462 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 550542010463 YycH protein; Region: YycI; pfam09648 550542010464 YycH protein; Region: YycH; pfam07435 550542010465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 550542010466 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 550542010467 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 550542010468 dimerization interface [polypeptide binding]; other site 550542010469 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 550542010470 putative active site [active] 550542010471 heme pocket [chemical binding]; other site 550542010472 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 550542010473 dimer interface [polypeptide binding]; other site 550542010474 phosphorylation site [posttranslational modification] 550542010475 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 550542010476 ATP binding site [chemical binding]; other site 550542010477 Mg2+ binding site [ion binding]; other site 550542010478 G-X-G motif; other site 550542010479 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550542010480 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 550542010481 active site 550542010482 phosphorylation site [posttranslational modification] 550542010483 intermolecular recognition site; other site 550542010484 dimerization interface [polypeptide binding]; other site 550542010485 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 550542010486 DNA binding site [nucleotide binding] 550542010487 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 550542010488 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 550542010489 GDP-binding site [chemical binding]; other site 550542010490 ACT binding site; other site 550542010491 IMP binding site; other site 550542010492 replicative DNA helicase; Provisional; Region: PRK05748 550542010493 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 550542010494 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 550542010495 Walker A motif; other site 550542010496 ATP binding site [chemical binding]; other site 550542010497 Walker B motif; other site 550542010498 DNA binding loops [nucleotide binding] 550542010499 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 550542010500 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 550542010501 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 550542010502 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 550542010503 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 550542010504 DHH family; Region: DHH; pfam01368 550542010505 DHHA1 domain; Region: DHHA1; pfam02272 550542010506 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 550542010507 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 550542010508 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 550542010509 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 550542010510 dimer interface [polypeptide binding]; other site 550542010511 ssDNA binding site [nucleotide binding]; other site 550542010512 tetramer (dimer of dimers) interface [polypeptide binding]; other site 550542010513 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 550542010514 GTP-binding protein YchF; Reviewed; Region: PRK09601 550542010515 YchF GTPase; Region: YchF; cd01900 550542010516 G1 box; other site 550542010517 GTP/Mg2+ binding site [chemical binding]; other site 550542010518 Switch I region; other site 550542010519 G2 box; other site 550542010520 Switch II region; other site 550542010521 G3 box; other site 550542010522 G4 box; other site 550542010523 G5 box; other site 550542010524 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 550542010525 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 550542010526 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 550542010527 putative [4Fe-4S] binding site [ion binding]; other site 550542010528 putative molybdopterin cofactor binding site [chemical binding]; other site 550542010529 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 550542010530 molybdopterin cofactor binding site; other site 550542010531 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 550542010532 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 550542010533 Mechanosensitive ion channel; Region: MS_channel; pfam00924 550542010534 putative sporulation protein YyaC; Region: spore_YyaC; TIGR02841 550542010535 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 550542010536 ParB-like nuclease domain; Region: ParB; smart00470 550542010537 KorB domain; Region: KorB; pfam08535 550542010538 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 550542010539 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 550542010540 P-loop; other site 550542010541 Magnesium ion binding site [ion binding]; other site 550542010542 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 550542010543 Magnesium ion binding site [ion binding]; other site 550542010544 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 550542010545 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 550542010546 ParB-like nuclease domain; Region: ParBc; pfam02195 550542010547 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 550542010548 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 550542010549 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 550542010550 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 550542010551 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 550542010552 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 550542010553 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 550542010554 trmE is a tRNA modification GTPase; Region: trmE; cd04164 550542010555 G1 box; other site 550542010556 GTP/Mg2+ binding site [chemical binding]; other site 550542010557 Switch I region; other site 550542010558 G2 box; other site 550542010559 Switch II region; other site 550542010560 G3 box; other site 550542010561 G4 box; other site 550542010562 G5 box; other site 550542010563 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 550542010564 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 550542010565 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 550542010566 G-X-X-G motif; other site 550542010567 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 550542010568 RxxxH motif; other site 550542010569 OxaA-like protein precursor; Validated; Region: PRK02944 550542010570 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 550542010571 ribonuclease P; Reviewed; Region: rnpA; PRK00499 550542010572 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 550542010573 Initiator Replication protein; Region: Rep_3; pfam01051 550542010574 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 550542010575 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 550542010576 active site 550542010577 DNA binding site [nucleotide binding] 550542010578 Int/Topo IB signature motif; other site 550542010579 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 550542010580 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 550542010581 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 550542010582 Uncharacterized conserved protein [Function unknown]; Region: COG3535 550542010583 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 550542010584 Na binding site [ion binding]; other site 550542010585 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 550542010586 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 550542010587 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 550542010588 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 550542010589 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 550542010590 Protein of unknown function (DUF917); Region: DUF917; pfam06032 550542010591 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 550542010592 PAS domain; Region: PAS_9; pfam13426 550542010593 putative active site [active] 550542010594 heme pocket [chemical binding]; other site 550542010595 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 550542010596 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 550542010597 Walker A motif; other site 550542010598 ATP binding site [chemical binding]; other site 550542010599 Walker B motif; other site 550542010600 arginine finger; other site 550542010601 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 550542010602 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 550542010603 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 550542010604 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 550542010605 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 550542010606 additional DNA contacts [nucleotide binding]; other site 550542010607 mismatch recognition site; other site 550542010608 active site 550542010609 zinc binding site [ion binding]; other site 550542010610 DNA intercalation site [nucleotide binding]; other site 550542010611 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 550542010612 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 550542010613 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 550542010614 cofactor binding site; other site 550542010615 DNA binding site [nucleotide binding] 550542010616 substrate interaction site [chemical binding]; other site 550542010617 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 550542010618 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 550542010619 P-loop; other site 550542010620 Magnesium ion binding site [ion binding]; other site 550542010621 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 550542010622 Magnesium ion binding site [ion binding]; other site 550542010623 Transposase [DNA replication, recombination, and repair]; Region: COG5421 550542010624 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 550542010625 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 550542010626 substrate binding site [chemical binding]; other site 550542010627 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 550542010628 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 550542010629 substrate binding site [chemical binding]; other site 550542010630 ligand binding site [chemical binding]; other site 550542010631 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542010632 Transposase IS4; Region: DDE_Tnp_1_7; pfam13843 550542010633 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 550542010634 active site 550542010635 catalytic residues [active] 550542010636 metal binding site [ion binding]; metal-binding site 550542010637 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 550542010638 CoA-transferase family III; Region: CoA_transf_3; pfam02515 550542010639 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 550542010640 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 550542010641 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 550542010642 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 550542010643 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 550542010644 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 550542010645 Isochorismatase family; Region: Isochorismatase; pfam00857 550542010646 catalytic triad [active] 550542010647 conserved cis-peptide bond; other site 550542010648 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 550542010649 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542010650 Propionate catabolism activator; Region: PrpR_N; pfam06506 550542010651 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 550542010652 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 550542010653 putative active site [active] 550542010654 heme pocket [chemical binding]; other site 550542010655 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 550542010656 Walker A motif; other site 550542010657 ATP binding site [chemical binding]; other site 550542010658 Walker B motif; other site 550542010659 arginine finger; other site 550542010660 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 550542010661 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 550542010662 DDE superfamily endonuclease; Region: DDE_5; cl17874 550542010663 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 550542010664 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 550542010665 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 550542010666 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 550542010667 YvrJ protein family; Region: YvrJ; pfam12841 550542010668 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 550542010669 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 550542010670 Int/Topo IB signature motif; other site