-- dump date 20140620_081338 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1231389000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1231389000002 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 1231389000003 Walker A motif; other site 1231389000004 ATP binding site [chemical binding]; other site 1231389000005 Walker B motif; other site 1231389000006 arginine finger; other site 1231389000007 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 1231389000008 DnaA box-binding interface [nucleotide binding]; other site 1231389000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 1231389000010 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 1231389000011 putative DNA binding surface [nucleotide binding]; other site 1231389000012 dimer interface [polypeptide binding]; other site 1231389000013 beta-clamp/clamp loader binding surface; other site 1231389000014 beta-clamp/translesion DNA polymerase binding surface; other site 1231389000015 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 1231389000016 GTP-binding protein YchF; Reviewed; Region: PRK09601 1231389000017 YchF GTPase; Region: YchF; cd01900 1231389000018 G1 box; other site 1231389000019 GTP/Mg2+ binding site [chemical binding]; other site 1231389000020 Switch I region; other site 1231389000021 G2 box; other site 1231389000022 Switch II region; other site 1231389000023 G3 box; other site 1231389000024 G4 box; other site 1231389000025 G5 box; other site 1231389000026 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 1231389000027 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 1231389000028 putative active site [active] 1231389000029 catalytic residue [active] 1231389000030 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1231389000031 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1231389000032 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 1231389000033 ATP binding site [chemical binding]; other site 1231389000034 putative Mg++ binding site [ion binding]; other site 1231389000035 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 1231389000036 nucleotide binding region [chemical binding]; other site 1231389000037 ATP-binding site [chemical binding]; other site 1231389000038 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1231389000039 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 1231389000040 RNA binding surface [nucleotide binding]; other site 1231389000041 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1231389000042 Septum formation initiator; Region: DivIC; pfam04977 1231389000043 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1231389000044 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1231389000045 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 1231389000046 Ligand Binding Site [chemical binding]; other site 1231389000047 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1231389000048 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1231389000049 active site 1231389000050 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1231389000051 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 1231389000052 Walker A motif; other site 1231389000053 ATP binding site [chemical binding]; other site 1231389000054 Walker B motif; other site 1231389000055 arginine finger; other site 1231389000056 Peptidase family M41; Region: Peptidase_M41; pfam01434 1231389000057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1231389000058 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1231389000059 Surface antigen [General function prediction only]; Region: COG3942 1231389000060 CHAP domain; Region: CHAP; pfam05257 1231389000061 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 1231389000062 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1231389000063 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1231389000064 active site 1231389000065 aromatic amino acid aminotransferase; Validated; Region: PRK07309 1231389000066 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 1231389000067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1231389000068 homodimer interface [polypeptide binding]; other site 1231389000069 catalytic residue [active] 1231389000070 Recombination protein O N terminal; Region: RecO_N; pfam11967 1231389000071 DNA repair protein RecO; Region: reco; TIGR00613 1231389000072 Recombination protein O C terminal; Region: RecO_C; pfam02565 1231389000073 putative phosphate acyltransferase; Provisional; Region: PRK05331 1231389000074 acyl carrier protein; Provisional; Region: PRK12449 1231389000075 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1231389000076 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1231389000077 ATP binding site [chemical binding]; other site 1231389000078 active site 1231389000079 substrate binding site [chemical binding]; other site 1231389000080 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 1231389000081 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 1231389000082 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 1231389000083 dimerization interface [polypeptide binding]; other site 1231389000084 ATP binding site [chemical binding]; other site 1231389000085 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 1231389000086 dimerization interface [polypeptide binding]; other site 1231389000087 ATP binding site [chemical binding]; other site 1231389000088 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1231389000089 putative active site [active] 1231389000090 catalytic triad [active] 1231389000091 amidophosphoribosyltransferase; Provisional; Region: PRK07272 1231389000092 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 1231389000093 active site 1231389000094 tetramer interface [polypeptide binding]; other site 1231389000095 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1231389000096 active site 1231389000097 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1231389000098 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 1231389000099 dimerization interface [polypeptide binding]; other site 1231389000100 putative ATP binding site [chemical binding]; other site 1231389000101 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1231389000102 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1231389000103 active site 1231389000104 substrate binding site [chemical binding]; other site 1231389000105 cosubstrate binding site; other site 1231389000106 catalytic site [active] 1231389000107 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 1231389000108 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1231389000109 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 1231389000110 purine monophosphate binding site [chemical binding]; other site 1231389000111 dimer interface [polypeptide binding]; other site 1231389000112 putative catalytic residues [active] 1231389000113 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1231389000114 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1231389000115 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1231389000116 Peptidase family M23; Region: Peptidase_M23; pfam01551 1231389000117 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1231389000118 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1231389000119 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1231389000120 putative active site cavity [active] 1231389000121 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1231389000122 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1231389000123 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1231389000124 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 1231389000125 dimer interface [polypeptide binding]; other site 1231389000126 conserved gate region; other site 1231389000127 putative PBP binding loops; other site 1231389000128 ABC-ATPase subunit interface; other site 1231389000129 Domain of unknown function (DUF386); Region: DUF386; cl01047 1231389000130 Protein of unknown function, DUF624; Region: DUF624; pfam04854 1231389000131 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1231389000132 Class I aldolases; Region: Aldolase_Class_I; cl17187 1231389000133 catalytic residue [active] 1231389000134 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1231389000135 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1231389000136 nucleotide binding site [chemical binding]; other site 1231389000137 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 1231389000138 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1231389000139 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1231389000140 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1231389000141 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 1231389000142 putative active site [active] 1231389000143 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1231389000144 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1231389000145 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1231389000146 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1231389000147 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1231389000148 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1231389000149 ATP-grasp domain; Region: ATP-grasp; pfam02222 1231389000150 adenylosuccinate lyase; Provisional; Region: PRK07492 1231389000151 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1231389000152 tetramer interface [polypeptide binding]; other site 1231389000153 active site 1231389000154 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1231389000155 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 1231389000156 non-specific DNA binding site [nucleotide binding]; other site 1231389000157 salt bridge; other site 1231389000158 sequence-specific DNA binding site [nucleotide binding]; other site 1231389000159 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1231389000160 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 1231389000161 Walker A motif; other site 1231389000162 ATP binding site [chemical binding]; other site 1231389000163 Walker B motif; other site 1231389000164 arginine finger; other site 1231389000165 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1231389000166 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1231389000167 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1231389000168 active site 1231389000169 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1231389000170 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1231389000171 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 1231389000172 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1231389000173 active site 1231389000174 catalytic triad [active] 1231389000175 oxyanion hole [active] 1231389000176 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1231389000177 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1231389000178 putative catalytic cysteine [active] 1231389000179 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1231389000180 putative active site [active] 1231389000181 metal binding site [ion binding]; metal-binding site 1231389000182 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 1231389000183 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1231389000184 NAD binding site [chemical binding]; other site 1231389000185 substrate binding site [chemical binding]; other site 1231389000186 catalytic Zn binding site [ion binding]; other site 1231389000187 tetramer interface [polypeptide binding]; other site 1231389000188 structural Zn binding site [ion binding]; other site 1231389000189 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1231389000190 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1231389000191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1231389000192 catalytic residue [active] 1231389000193 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1231389000194 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 1231389000195 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1231389000196 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1231389000197 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1231389000198 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1231389000199 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1231389000200 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1231389000201 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1231389000202 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1231389000203 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 1231389000204 putative translocon binding site; other site 1231389000205 protein-rRNA interface [nucleotide binding]; other site 1231389000206 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1231389000207 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 1231389000208 G-X-X-G motif; other site 1231389000209 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1231389000210 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 1231389000211 23S rRNA interface [nucleotide binding]; other site 1231389000212 5S rRNA interface [nucleotide binding]; other site 1231389000213 putative antibiotic binding site [chemical binding]; other site 1231389000214 L25 interface [polypeptide binding]; other site 1231389000215 L27 interface [polypeptide binding]; other site 1231389000216 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 1231389000217 23S rRNA interface [nucleotide binding]; other site 1231389000218 putative translocon interaction site; other site 1231389000219 signal recognition particle (SRP54) interaction site; other site 1231389000220 L23 interface [polypeptide binding]; other site 1231389000221 trigger factor interaction site; other site 1231389000222 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1231389000223 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1231389000224 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1231389000225 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1231389000226 RNA binding site [nucleotide binding]; other site 1231389000227 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1231389000228 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1231389000229 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1231389000230 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1231389000231 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1231389000232 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1231389000233 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1231389000234 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 1231389000235 5S rRNA interface [nucleotide binding]; other site 1231389000236 L27 interface [polypeptide binding]; other site 1231389000237 23S rRNA interface [nucleotide binding]; other site 1231389000238 L5 interface [polypeptide binding]; other site 1231389000239 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1231389000240 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1231389000241 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1231389000242 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 1231389000243 23S rRNA binding site [nucleotide binding]; other site 1231389000244 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1231389000245 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1231389000246 SecY translocase; Region: SecY; pfam00344 1231389000247 adenylate kinase; Reviewed; Region: adk; PRK00279 1231389000248 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 1231389000249 AMP-binding site [chemical binding]; other site 1231389000250 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1231389000251 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 1231389000252 rRNA binding site [nucleotide binding]; other site 1231389000253 predicted 30S ribosome binding site; other site 1231389000254 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1231389000255 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1231389000256 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1231389000257 30S ribosomal protein S11; Validated; Region: PRK05309 1231389000258 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1231389000259 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1231389000260 alphaNTD homodimer interface [polypeptide binding]; other site 1231389000261 alphaNTD - beta interaction site [polypeptide binding]; other site 1231389000262 alphaNTD - beta' interaction site [polypeptide binding]; other site 1231389000263 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1231389000264 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1231389000265 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 1231389000266 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 1231389000267 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 1231389000268 catalytic core [active] 1231389000269 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 1231389000270 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1231389000271 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1231389000272 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1231389000273 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1231389000274 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1231389000275 GrpE; Region: GrpE; pfam01025 1231389000276 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 1231389000277 dimer interface [polypeptide binding]; other site 1231389000278 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1231389000279 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1231389000280 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1231389000281 nucleotide binding site [chemical binding]; other site 1231389000282 NEF interaction site [polypeptide binding]; other site 1231389000283 SBD interface [polypeptide binding]; other site 1231389000284 chaperone protein DnaJ; Provisional; Region: PRK14276 1231389000285 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 1231389000286 HSP70 interaction site [polypeptide binding]; other site 1231389000287 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1231389000288 substrate binding site [polypeptide binding]; other site 1231389000289 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1231389000290 Zn binding sites [ion binding]; other site 1231389000291 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1231389000292 dimer interface [polypeptide binding]; other site 1231389000293 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1231389000294 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1231389000295 DNA-binding site [nucleotide binding]; DNA binding site 1231389000296 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 1231389000297 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1231389000298 homodimer interface [polypeptide binding]; other site 1231389000299 catalytic residue [active] 1231389000300 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1231389000301 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1231389000302 dimerization interface 3.5A [polypeptide binding]; other site 1231389000303 active site 1231389000304 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 1231389000305 dimer interface [polypeptide binding]; other site 1231389000306 substrate binding site [chemical binding]; other site 1231389000307 ATP binding site [chemical binding]; other site 1231389000308 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 1231389000309 hypothetical protein; Provisional; Region: PRK13690 1231389000310 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1231389000311 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1231389000312 trigger factor; Provisional; Region: tig; PRK01490 1231389000313 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1231389000314 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1231389000315 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 1231389000316 CTP synthetase; Validated; Region: pyrG; PRK05380 1231389000317 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 1231389000318 Catalytic site [active] 1231389000319 active site 1231389000320 UTP binding site [chemical binding]; other site 1231389000321 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1231389000322 active site 1231389000323 putative oxyanion hole; other site 1231389000324 catalytic triad [active] 1231389000325 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1231389000326 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1231389000327 trimer interface [polypeptide binding]; other site 1231389000328 active site 1231389000329 DNA repair protein RadA; Provisional; Region: PRK11823 1231389000330 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 1231389000331 Walker A motif/ATP binding site; other site 1231389000332 ATP binding site [chemical binding]; other site 1231389000333 Walker B motif; other site 1231389000334 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1231389000335 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 1231389000336 active site clefts [active] 1231389000337 zinc binding site [ion binding]; other site 1231389000338 dimer interface [polypeptide binding]; other site 1231389000339 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 1231389000340 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1231389000341 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1231389000342 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1231389000343 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1231389000344 active site 1231389000345 HIGH motif; other site 1231389000346 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1231389000347 active site 1231389000348 KMSKS motif; other site 1231389000349 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1231389000350 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1231389000351 ligand binding site [chemical binding]; other site 1231389000352 dimerization interface [polypeptide binding]; other site 1231389000353 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 1231389000354 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1231389000355 TM-ABC transporter signature motif; other site 1231389000356 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1231389000357 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1231389000358 Walker A/P-loop; other site 1231389000359 ATP binding site [chemical binding]; other site 1231389000360 Q-loop/lid; other site 1231389000361 ABC transporter signature motif; other site 1231389000362 Walker B; other site 1231389000363 D-loop; other site 1231389000364 H-loop/switch region; other site 1231389000365 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1231389000366 D-ribose pyranase; Provisional; Region: PRK11797 1231389000367 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1231389000368 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 1231389000369 substrate binding site [chemical binding]; other site 1231389000370 dimer interface [polypeptide binding]; other site 1231389000371 ATP binding site [chemical binding]; other site 1231389000372 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1231389000373 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1231389000374 DNA binding site [nucleotide binding] 1231389000375 domain linker motif; other site 1231389000376 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1231389000377 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1231389000378 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1231389000379 FtsX-like permease family; Region: FtsX; pfam02687 1231389000380 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1231389000381 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1231389000382 Walker A/P-loop; other site 1231389000383 ATP binding site [chemical binding]; other site 1231389000384 Q-loop/lid; other site 1231389000385 ABC transporter signature motif; other site 1231389000386 Walker B; other site 1231389000387 D-loop; other site 1231389000388 H-loop/switch region; other site 1231389000389 Response regulator receiver domain; Region: Response_reg; pfam00072 1231389000390 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 1231389000391 active site 1231389000392 phosphorylation site [posttranslational modification] 1231389000393 intermolecular recognition site; other site 1231389000394 dimerization interface [polypeptide binding]; other site 1231389000395 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1231389000396 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 1231389000397 dimerization interface [polypeptide binding]; other site 1231389000398 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 1231389000399 dimer interface [polypeptide binding]; other site 1231389000400 phosphorylation site [posttranslational modification] 1231389000401 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 1231389000402 ATP binding site [chemical binding]; other site 1231389000403 Mg2+ binding site [ion binding]; other site 1231389000404 G-X-G motif; other site 1231389000405 argininosuccinate synthase; Provisional; Region: PRK13820 1231389000406 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 1231389000407 ANP binding site [chemical binding]; other site 1231389000408 Substrate Binding Site II [chemical binding]; other site 1231389000409 Substrate Binding Site I [chemical binding]; other site 1231389000410 argininosuccinate lyase; Provisional; Region: PRK00855 1231389000411 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1231389000412 active sites [active] 1231389000413 tetramer interface [polypeptide binding]; other site 1231389000414 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1231389000415 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 1231389000416 intersubunit interface [polypeptide binding]; other site 1231389000417 active site 1231389000418 zinc binding site [ion binding]; other site 1231389000419 Na+ binding site [ion binding]; other site 1231389000420 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1231389000421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1231389000422 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1231389000423 DAK2 domain; Region: Dak2; pfam02734 1231389000424 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1231389000425 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_4; cd03407 1231389000426 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1231389000427 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389000428 Walker A/P-loop; other site 1231389000429 ATP binding site [chemical binding]; other site 1231389000430 Q-loop/lid; other site 1231389000431 ABC transporter signature motif; other site 1231389000432 Walker B; other site 1231389000433 D-loop; other site 1231389000434 H-loop/switch region; other site 1231389000435 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1231389000436 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 1231389000437 substrate binding pocket [chemical binding]; other site 1231389000438 membrane-bound complex binding site; other site 1231389000439 hinge residues; other site 1231389000440 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1231389000441 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 1231389000442 dimer interface [polypeptide binding]; other site 1231389000443 conserved gate region; other site 1231389000444 putative PBP binding loops; other site 1231389000445 ABC-ATPase subunit interface; other site 1231389000446 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1231389000447 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1231389000448 adaptor protein; Provisional; Region: PRK02315 1231389000449 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1231389000450 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 1231389000451 Mg++ binding site [ion binding]; other site 1231389000452 putative catalytic motif [active] 1231389000453 substrate binding site [chemical binding]; other site 1231389000454 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1231389000455 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1231389000456 Walker A/P-loop; other site 1231389000457 ATP binding site [chemical binding]; other site 1231389000458 Q-loop/lid; other site 1231389000459 ABC transporter signature motif; other site 1231389000460 Walker B; other site 1231389000461 D-loop; other site 1231389000462 H-loop/switch region; other site 1231389000463 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1231389000464 FeS assembly protein SufD; Region: sufD; TIGR01981 1231389000465 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1231389000466 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 1231389000467 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1231389000468 catalytic residue [active] 1231389000469 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1231389000470 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1231389000471 trimerization site [polypeptide binding]; other site 1231389000472 active site 1231389000473 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1231389000474 FeS assembly protein SufB; Region: sufB; TIGR01980 1231389000475 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1231389000476 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1231389000477 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1231389000478 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1231389000479 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1231389000480 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1231389000481 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1231389000482 peptide binding site [polypeptide binding]; other site 1231389000483 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1231389000484 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 1231389000485 dimer interface [polypeptide binding]; other site 1231389000486 conserved gate region; other site 1231389000487 putative PBP binding loops; other site 1231389000488 ABC-ATPase subunit interface; other site 1231389000489 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1231389000490 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 1231389000491 dimer interface [polypeptide binding]; other site 1231389000492 conserved gate region; other site 1231389000493 putative PBP binding loops; other site 1231389000494 ABC-ATPase subunit interface; other site 1231389000495 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1231389000496 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1231389000497 Walker A/P-loop; other site 1231389000498 ATP binding site [chemical binding]; other site 1231389000499 Q-loop/lid; other site 1231389000500 ABC transporter signature motif; other site 1231389000501 Walker B; other site 1231389000502 D-loop; other site 1231389000503 H-loop/switch region; other site 1231389000504 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1231389000505 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1231389000506 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1231389000507 Walker A/P-loop; other site 1231389000508 ATP binding site [chemical binding]; other site 1231389000509 Q-loop/lid; other site 1231389000510 ABC transporter signature motif; other site 1231389000511 Walker B; other site 1231389000512 D-loop; other site 1231389000513 H-loop/switch region; other site 1231389000514 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1231389000515 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1231389000516 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1231389000517 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1231389000518 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1231389000519 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 1231389000520 putative Zn2+ binding site [ion binding]; other site 1231389000521 putative DNA binding site [nucleotide binding]; other site 1231389000522 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1231389000523 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1231389000524 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1231389000525 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 1231389000526 ABC-ATPase subunit interface; other site 1231389000527 dimer interface [polypeptide binding]; other site 1231389000528 putative PBP binding regions; other site 1231389000529 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1231389000530 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1231389000531 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1231389000532 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1231389000533 active site 1231389000534 HIGH motif; other site 1231389000535 dimer interface [polypeptide binding]; other site 1231389000536 KMSKS motif; other site 1231389000537 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 1231389000538 RNA binding surface [nucleotide binding]; other site 1231389000539 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1231389000540 Transglycosylase; Region: Transgly; pfam00912 1231389000541 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1231389000542 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 1231389000543 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1231389000544 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1231389000545 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 1231389000546 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 1231389000547 RPB1 interaction site [polypeptide binding]; other site 1231389000548 RPB10 interaction site [polypeptide binding]; other site 1231389000549 RPB11 interaction site [polypeptide binding]; other site 1231389000550 RPB3 interaction site [polypeptide binding]; other site 1231389000551 RPB12 interaction site [polypeptide binding]; other site 1231389000552 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1231389000553 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1231389000554 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1231389000555 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1231389000556 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1231389000557 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1231389000558 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1231389000559 G-loop; other site 1231389000560 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1231389000561 DNA binding site [nucleotide binding] 1231389000562 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1231389000563 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 1231389000564 Type II/IV secretion system protein; Region: T2SE; pfam00437 1231389000565 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 1231389000566 Walker A motif; other site 1231389000567 ATP binding site [chemical binding]; other site 1231389000568 Walker B motif; other site 1231389000569 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1231389000570 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1231389000571 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1231389000572 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1231389000573 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1231389000574 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 1231389000575 S-adenosylmethionine binding site [chemical binding]; other site 1231389000576 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1231389000577 propionate/acetate kinase; Provisional; Region: PRK12379 1231389000578 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 1231389000579 non-specific DNA binding site [nucleotide binding]; other site 1231389000580 salt bridge; other site 1231389000581 sequence-specific DNA binding site [nucleotide binding]; other site 1231389000582 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1231389000583 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1231389000584 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1231389000585 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 1231389000586 oligomer interface [polypeptide binding]; other site 1231389000587 active site 1231389000588 metal binding site [ion binding]; metal-binding site 1231389000589 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 1231389000590 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1231389000591 catalytic residues [active] 1231389000592 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 1231389000593 putative tRNA-binding site [nucleotide binding]; other site 1231389000594 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1231389000595 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 1231389000596 S-adenosylmethionine binding site [chemical binding]; other site 1231389000597 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1231389000598 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 1231389000599 dimer interface [polypeptide binding]; other site 1231389000600 ssDNA binding site [nucleotide binding]; other site 1231389000601 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1231389000602 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1231389000603 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 1231389000604 motif II; other site 1231389000605 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1231389000606 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1231389000607 GAF domain; Region: GAF_3; pfam13492 1231389000608 Histidine kinase; Region: His_kinase; pfam06580 1231389000609 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 1231389000610 ATP binding site [chemical binding]; other site 1231389000611 Mg2+ binding site [ion binding]; other site 1231389000612 G-X-G motif; other site 1231389000613 two-component response regulator; Provisional; Region: PRK14084 1231389000614 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 1231389000615 active site 1231389000616 phosphorylation site [posttranslational modification] 1231389000617 intermolecular recognition site; other site 1231389000618 dimerization interface [polypeptide binding]; other site 1231389000619 LytTr DNA-binding domain; Region: LytTR; pfam04397 1231389000620 LrgA family; Region: LrgA; cl00608 1231389000621 LrgB-like family; Region: LrgB; cl00596 1231389000622 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1231389000623 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 1231389000624 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1231389000625 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 1231389000626 dimer interface [polypeptide binding]; other site 1231389000627 conserved gate region; other site 1231389000628 putative PBP binding loops; other site 1231389000629 ABC-ATPase subunit interface; other site 1231389000630 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1231389000631 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 1231389000632 dimer interface [polypeptide binding]; other site 1231389000633 conserved gate region; other site 1231389000634 putative PBP binding loops; other site 1231389000635 ABC-ATPase subunit interface; other site 1231389000636 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1231389000637 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1231389000638 Walker A/P-loop; other site 1231389000639 ATP binding site [chemical binding]; other site 1231389000640 Q-loop/lid; other site 1231389000641 ABC transporter signature motif; other site 1231389000642 Walker B; other site 1231389000643 D-loop; other site 1231389000644 H-loop/switch region; other site 1231389000645 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1231389000646 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1231389000647 Walker A/P-loop; other site 1231389000648 ATP binding site [chemical binding]; other site 1231389000649 Q-loop/lid; other site 1231389000650 ABC transporter signature motif; other site 1231389000651 Walker B; other site 1231389000652 D-loop; other site 1231389000653 H-loop/switch region; other site 1231389000654 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 1231389000655 Ca binding site [ion binding]; other site 1231389000656 active site 1231389000657 catalytic site [active] 1231389000658 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1231389000659 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1231389000660 PRD domain; Region: PRD; pfam00874 1231389000661 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 1231389000662 active site 1231389000663 P-loop; other site 1231389000664 phosphorylation site [posttranslational modification] 1231389000665 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 1231389000666 active site 1231389000667 phosphorylation site [posttranslational modification] 1231389000668 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 1231389000669 active site 1231389000670 P-loop; other site 1231389000671 phosphorylation site [posttranslational modification] 1231389000672 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1231389000673 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 1231389000674 TPP-binding site [chemical binding]; other site 1231389000675 dimer interface [polypeptide binding]; other site 1231389000676 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1231389000677 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 1231389000678 PYR/PP interface [polypeptide binding]; other site 1231389000679 dimer interface [polypeptide binding]; other site 1231389000680 TPP binding site [chemical binding]; other site 1231389000681 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1231389000682 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1231389000683 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 1231389000684 FAD binding pocket [chemical binding]; other site 1231389000685 FAD binding motif [chemical binding]; other site 1231389000686 phosphate binding motif [ion binding]; other site 1231389000687 beta-alpha-beta structure motif; other site 1231389000688 NAD binding pocket [chemical binding]; other site 1231389000689 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 1231389000690 16S/18S rRNA binding site [nucleotide binding]; other site 1231389000691 S13e-L30e interaction site [polypeptide binding]; other site 1231389000692 25S rRNA binding site [nucleotide binding]; other site 1231389000693 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1231389000694 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1231389000695 RNase E interface [polypeptide binding]; other site 1231389000696 trimer interface [polypeptide binding]; other site 1231389000697 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1231389000698 RNase E interface [polypeptide binding]; other site 1231389000699 trimer interface [polypeptide binding]; other site 1231389000700 active site 1231389000701 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 1231389000702 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 1231389000703 RNA binding site [nucleotide binding]; other site 1231389000704 domain interface; other site 1231389000705 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 1231389000706 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 1231389000707 trimer interface [polypeptide binding]; other site 1231389000708 active site 1231389000709 substrate binding site [chemical binding]; other site 1231389000710 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1231389000711 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1231389000712 active site 1231389000713 HIGH motif; other site 1231389000714 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1231389000715 KMSKS motif; other site 1231389000716 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1231389000717 tRNA binding surface [nucleotide binding]; other site 1231389000718 anticodon binding site; other site 1231389000719 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 1231389000720 active site 1231389000721 metal binding site [ion binding]; metal-binding site 1231389000722 dimerization interface [polypeptide binding]; other site 1231389000723 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1231389000724 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1231389000725 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1231389000726 YacP-like NYN domain; Region: NYN_YacP; cl01491 1231389000727 EDD domain protein, DegV family; Region: DegV; TIGR00762 1231389000728 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1231389000729 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 1231389000730 non-specific DNA binding site [nucleotide binding]; other site 1231389000731 salt bridge; other site 1231389000732 sequence-specific DNA binding site [nucleotide binding]; other site 1231389000733 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 1231389000734 23S rRNA interface [nucleotide binding]; other site 1231389000735 L3 interface [polypeptide binding]; other site 1231389000736 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1231389000737 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 1231389000738 De-etiolated protein 1 Det1; Region: Det1; pfam09737 1231389000739 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 1231389000740 non-specific DNA binding site [nucleotide binding]; other site 1231389000741 salt bridge; other site 1231389000742 sequence-specific DNA binding site [nucleotide binding]; other site 1231389000743 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1231389000744 H+ Antiporter protein; Region: 2A0121; TIGR00900 1231389000745 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 1231389000746 dimer interface [polypeptide binding]; other site 1231389000747 conserved gate region; other site 1231389000748 ABC-ATPase subunit interface; other site 1231389000749 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1231389000750 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1231389000751 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 1231389000752 dimer interface [polypeptide binding]; other site 1231389000753 conserved gate region; other site 1231389000754 putative PBP binding loops; other site 1231389000755 ABC-ATPase subunit interface; other site 1231389000756 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1231389000757 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1231389000758 Walker A/P-loop; other site 1231389000759 ATP binding site [chemical binding]; other site 1231389000760 Q-loop/lid; other site 1231389000761 ABC transporter signature motif; other site 1231389000762 Walker B; other site 1231389000763 D-loop; other site 1231389000764 H-loop/switch region; other site 1231389000765 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 1231389000766 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1231389000767 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1231389000768 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1231389000769 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1231389000770 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1231389000771 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1231389000772 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1231389000773 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1231389000774 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1231389000775 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1231389000776 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1231389000777 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1231389000778 Walker A/P-loop; other site 1231389000779 ATP binding site [chemical binding]; other site 1231389000780 Q-loop/lid; other site 1231389000781 ABC transporter signature motif; other site 1231389000782 Walker B; other site 1231389000783 D-loop; other site 1231389000784 H-loop/switch region; other site 1231389000785 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 1231389000786 Predicted transcriptional regulators [Transcription]; Region: COG1695 1231389000787 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1231389000788 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1231389000789 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 1231389000790 active site 1231389000791 dimer interface [polypeptide binding]; other site 1231389000792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 1231389000793 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1231389000794 dimer interface [polypeptide binding]; other site 1231389000795 motif 1; other site 1231389000796 active site 1231389000797 motif 2; other site 1231389000798 motif 3; other site 1231389000799 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1231389000800 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1231389000801 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1231389000802 DALR anticodon binding domain; Region: DALR_1; pfam05746 1231389000803 hypothetical protein; Provisional; Region: PRK02539 1231389000804 Predicted membrane protein [Function unknown]; Region: COG3326 1231389000805 glycerol kinase; Provisional; Region: glpK; PRK00047 1231389000806 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1231389000807 N- and C-terminal domain interface [polypeptide binding]; other site 1231389000808 active site 1231389000809 MgATP binding site [chemical binding]; other site 1231389000810 catalytic site [active] 1231389000811 metal binding site [ion binding]; metal-binding site 1231389000812 glycerol binding site [chemical binding]; other site 1231389000813 homotetramer interface [polypeptide binding]; other site 1231389000814 homodimer interface [polypeptide binding]; other site 1231389000815 FBP binding site [chemical binding]; other site 1231389000816 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1231389000817 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 1231389000818 amphipathic channel; other site 1231389000819 Asn-Pro-Ala signature motifs; other site 1231389000820 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1231389000821 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1231389000822 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1231389000823 Mga helix-turn-helix domain; Region: Mga; pfam05043 1231389000824 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1231389000825 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 1231389000826 TPP-binding site [chemical binding]; other site 1231389000827 dimer interface [polypeptide binding]; other site 1231389000828 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 1231389000829 PYR/PP interface [polypeptide binding]; other site 1231389000830 dimer interface [polypeptide binding]; other site 1231389000831 TPP binding site [chemical binding]; other site 1231389000832 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1231389000833 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1231389000834 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1231389000835 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1231389000836 Walker A/P-loop; other site 1231389000837 ATP binding site [chemical binding]; other site 1231389000838 Q-loop/lid; other site 1231389000839 ABC transporter signature motif; other site 1231389000840 Walker B; other site 1231389000841 D-loop; other site 1231389000842 H-loop/switch region; other site 1231389000843 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1231389000844 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 1231389000845 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1231389000846 active site turn [active] 1231389000847 phosphorylation site [posttranslational modification] 1231389000848 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1231389000849 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 1231389000850 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 1231389000851 nucleotide binding site [chemical binding]; other site 1231389000852 homotetrameric interface [polypeptide binding]; other site 1231389000853 putative phosphate binding site [ion binding]; other site 1231389000854 putative allosteric binding site; other site 1231389000855 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1231389000856 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1231389000857 putative catalytic cysteine [active] 1231389000858 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1231389000859 MraW methylase family; Region: Methyltransf_5; pfam01795 1231389000860 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 1231389000861 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1231389000862 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1231389000863 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1231389000864 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 1231389000865 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 1231389000866 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1231389000867 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 1231389000868 Mg++ binding site [ion binding]; other site 1231389000869 putative catalytic motif [active] 1231389000870 putative substrate binding site [chemical binding]; other site 1231389000871 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 1231389000872 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1231389000873 ATP binding site [chemical binding]; other site 1231389000874 Mg++ binding site [ion binding]; other site 1231389000875 motif III; other site 1231389000876 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 1231389000877 nucleotide binding region [chemical binding]; other site 1231389000878 ATP-binding site [chemical binding]; other site 1231389000879 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1231389000880 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 1231389000881 substrate binding pocket [chemical binding]; other site 1231389000882 membrane-bound complex binding site; other site 1231389000883 hinge residues; other site 1231389000884 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1231389000885 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 1231389000886 dimer interface [polypeptide binding]; other site 1231389000887 conserved gate region; other site 1231389000888 putative PBP binding loops; other site 1231389000889 ABC-ATPase subunit interface; other site 1231389000890 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1231389000891 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1231389000892 Walker A/P-loop; other site 1231389000893 ATP binding site [chemical binding]; other site 1231389000894 Q-loop/lid; other site 1231389000895 ABC transporter signature motif; other site 1231389000896 Walker B; other site 1231389000897 D-loop; other site 1231389000898 H-loop/switch region; other site 1231389000899 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 1231389000900 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1231389000901 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1231389000902 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1231389000903 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1231389000904 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 1231389000905 active site 1231389000906 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1231389000907 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 1231389000908 homodimer interface [polypeptide binding]; other site 1231389000909 NAD binding pocket [chemical binding]; other site 1231389000910 ATP binding pocket [chemical binding]; other site 1231389000911 Mg binding site [ion binding]; other site 1231389000912 active-site loop [active] 1231389000913 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 1231389000914 trimer interface [polypeptide binding]; other site 1231389000915 active site 1231389000916 G bulge; other site 1231389000917 Transglycosylase; Region: Transgly; pfam00912 1231389000918 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1231389000919 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1231389000920 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 1231389000921 hypothetical protein; Provisional; Region: PRK13660 1231389000922 cell division protein GpsB; Provisional; Region: PRK14127 1231389000923 DivIVA domain; Region: DivI1A_domain; TIGR03544 1231389000924 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1231389000925 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1231389000926 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1231389000927 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1231389000928 hypothetical protein; Provisional; Region: PRK00106 1231389000929 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1231389000930 Zn2+ binding site [ion binding]; other site 1231389000931 Mg2+ binding site [ion binding]; other site 1231389000932 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1231389000933 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1231389000934 Walker A/P-loop; other site 1231389000935 ATP binding site [chemical binding]; other site 1231389000936 Q-loop/lid; other site 1231389000937 ABC transporter signature motif; other site 1231389000938 Walker B; other site 1231389000939 D-loop; other site 1231389000940 H-loop/switch region; other site 1231389000941 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1231389000942 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1231389000943 Histidine kinase; Region: HisKA_3; pfam07730 1231389000944 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1231389000945 Mg2+ binding site [ion binding]; other site 1231389000946 G-X-G motif; other site 1231389000947 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 1231389000948 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1231389000949 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 1231389000950 catalytic site [active] 1231389000951 G-X2-G-X-G-K; other site 1231389000952 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1231389000953 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1231389000954 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 1231389000955 ATP binding site [chemical binding]; other site 1231389000956 putative Mg++ binding site [ion binding]; other site 1231389000957 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 1231389000958 ATP-binding site [chemical binding]; other site 1231389000959 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1231389000960 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1231389000961 putative active site [active] 1231389000962 substrate binding site [chemical binding]; other site 1231389000963 putative cosubstrate binding site; other site 1231389000964 catalytic site [active] 1231389000965 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1231389000966 substrate binding site [chemical binding]; other site 1231389000967 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1231389000968 NusB family; Region: NusB; pfam01029 1231389000969 putative RNA binding site [nucleotide binding]; other site 1231389000970 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 1231389000971 S-adenosylmethionine binding site [chemical binding]; other site 1231389000972 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 1231389000973 active site 1231389000974 Protein phosphatase 2C; Region: PP2C; pfam00481 1231389000975 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1231389000976 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1231389000977 active site 1231389000978 ATP binding site [chemical binding]; other site 1231389000979 substrate binding site [chemical binding]; other site 1231389000980 activation loop (A-loop); other site 1231389000981 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 1231389000982 PASTA domain; Region: PASTA; smart00740 1231389000983 PASTA domain; Region: PASTA; pfam03793 1231389000984 Predicted membrane protein [Function unknown]; Region: COG4758 1231389000985 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1231389000986 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1231389000987 Histidine kinase; Region: HisKA_3; pfam07730 1231389000988 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 1231389000989 ATP binding site [chemical binding]; other site 1231389000990 Mg2+ binding site [ion binding]; other site 1231389000991 G-X-G motif; other site 1231389000992 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1231389000993 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 1231389000994 active site 1231389000995 phosphorylation site [posttranslational modification] 1231389000996 intermolecular recognition site; other site 1231389000997 dimerization interface [polypeptide binding]; other site 1231389000998 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 1231389000999 DNA binding residues [nucleotide binding] 1231389001000 dimerization interface [polypeptide binding]; other site 1231389001001 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1231389001002 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 1231389001003 active site 1231389001004 motif I; other site 1231389001005 motif II; other site 1231389001006 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1231389001007 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 1231389001008 active site 1231389001009 hypothetical protein; Provisional; Region: PRK07252 1231389001010 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 1231389001011 RNA binding site [nucleotide binding]; other site 1231389001012 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1231389001013 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1231389001014 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1231389001015 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1231389001016 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 1231389001017 DNA binding residues [nucleotide binding] 1231389001018 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1231389001019 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 1231389001020 active site 1231389001021 methionine cluster; other site 1231389001022 phosphorylation site [posttranslational modification] 1231389001023 metal binding site [ion binding]; metal-binding site 1231389001024 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 1231389001025 active site 1231389001026 P-loop; other site 1231389001027 phosphorylation site [posttranslational modification] 1231389001028 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 1231389001029 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1231389001030 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1231389001031 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1231389001032 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 1231389001033 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 1231389001034 ATP binding site [chemical binding]; other site 1231389001035 putative Mg++ binding site [ion binding]; other site 1231389001036 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 1231389001037 nucleotide binding region [chemical binding]; other site 1231389001038 ATP-binding site [chemical binding]; other site 1231389001039 comF family protein; Region: comF; TIGR00201 1231389001040 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1231389001041 active site 1231389001042 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 1231389001043 30S subunit binding site; other site 1231389001044 aspartate kinase; Reviewed; Region: PRK09034 1231389001045 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 1231389001046 putative catalytic residues [active] 1231389001047 putative nucleotide binding site [chemical binding]; other site 1231389001048 putative aspartate binding site [chemical binding]; other site 1231389001049 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 1231389001050 allosteric regulatory residue; other site 1231389001051 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 1231389001052 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1231389001053 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 1231389001054 motif II; other site 1231389001055 enoyl-CoA hydratase; Provisional; Region: PRK07260 1231389001056 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 1231389001057 substrate binding site [chemical binding]; other site 1231389001058 oxyanion hole (OAH) forming residues; other site 1231389001059 trimer interface [polypeptide binding]; other site 1231389001060 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1231389001061 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 1231389001062 putative Zn2+ binding site [ion binding]; other site 1231389001063 putative DNA binding site [nucleotide binding]; other site 1231389001064 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1231389001065 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 1231389001066 dimer interface [polypeptide binding]; other site 1231389001067 active site 1231389001068 CoA binding pocket [chemical binding]; other site 1231389001069 acyl carrier protein; Provisional; Region: acpP; PRK00982 1231389001070 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1231389001071 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 1231389001072 FMN binding site [chemical binding]; other site 1231389001073 substrate binding site [chemical binding]; other site 1231389001074 putative catalytic residue [active] 1231389001075 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1231389001076 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1231389001077 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1231389001078 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1231389001079 NAD(P) binding site [chemical binding]; other site 1231389001080 homotetramer interface [polypeptide binding]; other site 1231389001081 homodimer interface [polypeptide binding]; other site 1231389001082 active site 1231389001083 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 1231389001084 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1231389001085 dimer interface [polypeptide binding]; other site 1231389001086 active site 1231389001087 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1231389001088 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 1231389001089 carboxyltransferase (CT) interaction site; other site 1231389001090 biotinylation site [posttranslational modification]; other site 1231389001091 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 1231389001092 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1231389001093 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1231389001094 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1231389001095 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1231389001096 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1231389001097 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1231389001098 acetyl-CoA carboxylase subunit alpha; Provisional; Region: PRK12319 1231389001099 seryl-tRNA synthetase; Provisional; Region: PRK05431 1231389001100 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1231389001101 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 1231389001102 dimer interface [polypeptide binding]; other site 1231389001103 active site 1231389001104 motif 1; other site 1231389001105 motif 2; other site 1231389001106 motif 3; other site 1231389001107 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1231389001108 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1231389001109 Domain of unknown function (DUF956); Region: DUF956; pfam06115 1231389001110 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1231389001111 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1231389001112 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1231389001113 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 1231389001114 active pocket/dimerization site; other site 1231389001115 active site 1231389001116 phosphorylation site [posttranslational modification] 1231389001117 PTS_IIB, PTS system, Mannose/sorbose 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_man; cd00001 1231389001118 active site 1231389001119 phosphorylation site [posttranslational modification] 1231389001120 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 1231389001121 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1231389001122 active site 1231389001123 motif I; other site 1231389001124 motif II; other site 1231389001125 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1231389001126 Protein of unknown function (DUF1361); Region: DUF1361; pfam07099 1231389001127 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1231389001128 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1231389001129 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 1231389001130 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1231389001131 Coenzyme A binding pocket [chemical binding]; other site 1231389001132 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1231389001133 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 1231389001134 HIT family signature motif; other site 1231389001135 catalytic residue [active] 1231389001136 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1231389001137 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1231389001138 Walker A/P-loop; other site 1231389001139 ATP binding site [chemical binding]; other site 1231389001140 Q-loop/lid; other site 1231389001141 ABC transporter signature motif; other site 1231389001142 Walker B; other site 1231389001143 D-loop; other site 1231389001144 H-loop/switch region; other site 1231389001145 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 1231389001146 Phosphotransferase enzyme family; Region: APH; pfam01636 1231389001147 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 1231389001148 active site 1231389001149 ATP binding site [chemical binding]; other site 1231389001150 substrate binding site [chemical binding]; other site 1231389001151 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 1231389001152 S-adenosylmethionine binding site [chemical binding]; other site 1231389001153 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1231389001154 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1231389001155 putative oligomer interface [polypeptide binding]; other site 1231389001156 putative RNA binding site [nucleotide binding]; other site 1231389001157 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1231389001158 NusA N-terminal domain; Region: NusA_N; pfam08529 1231389001159 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 1231389001160 RNA binding site [nucleotide binding]; other site 1231389001161 homodimer interface [polypeptide binding]; other site 1231389001162 NusA-like KH domain; Region: KH_5; pfam13184 1231389001163 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 1231389001164 G-X-X-G motif; other site 1231389001165 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 1231389001166 putative RNA binding cleft [nucleotide binding]; other site 1231389001167 hypothetical protein; Provisional; Region: PRK07283 1231389001168 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1231389001169 translation initiation factor IF-2; Region: IF-2; TIGR00487 1231389001170 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1231389001171 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1231389001172 G1 box; other site 1231389001173 putative GEF interaction site [polypeptide binding]; other site 1231389001174 GTP/Mg2+ binding site [chemical binding]; other site 1231389001175 Switch I region; other site 1231389001176 G2 box; other site 1231389001177 G3 box; other site 1231389001178 Switch II region; other site 1231389001179 G4 box; other site 1231389001180 G5 box; other site 1231389001181 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 1231389001182 Translation-initiation factor 2; Region: IF-2; pfam11987 1231389001183 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 1231389001184 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1231389001185 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1231389001186 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1231389001187 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1231389001188 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1231389001189 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1231389001190 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 1231389001191 metal-binding site [ion binding] 1231389001192 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1231389001193 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 1231389001194 motif II; other site 1231389001195 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 1231389001196 metal-binding site [ion binding] 1231389001197 Predicted membrane protein [Function unknown]; Region: COG2860 1231389001198 UPF0126 domain; Region: UPF0126; pfam03458 1231389001199 UPF0126 domain; Region: UPF0126; pfam03458 1231389001200 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1231389001201 DNA polymerase I; Provisional; Region: PRK05755 1231389001202 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1231389001203 active site 1231389001204 metal binding site 1 [ion binding]; metal-binding site 1231389001205 putative 5' ssDNA interaction site; other site 1231389001206 metal binding site 3; metal-binding site 1231389001207 metal binding site 2 [ion binding]; metal-binding site 1231389001208 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1231389001209 putative DNA binding site [nucleotide binding]; other site 1231389001210 putative metal binding site [ion binding]; other site 1231389001211 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 1231389001212 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1231389001213 active site 1231389001214 DNA binding site [nucleotide binding] 1231389001215 catalytic site [active] 1231389001216 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1231389001217 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1231389001218 metal binding site 2 [ion binding]; metal-binding site 1231389001219 putative DNA binding helix; other site 1231389001220 metal binding site 1 [ion binding]; metal-binding site 1231389001221 dimer interface [polypeptide binding]; other site 1231389001222 structural Zn2+ binding site [ion binding]; other site 1231389001223 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1231389001224 Fibronectin-binding repeat; Region: SSURE; pfam11966 1231389001225 Fibronectin-binding repeat; Region: SSURE; pfam11966 1231389001226 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 1231389001227 ATP binding site [chemical binding]; other site 1231389001228 G-X-G motif; other site 1231389001229 Protein of unknown function (DUF975); Region: DUF975; pfam06161 1231389001230 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1231389001231 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1231389001232 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 1231389001233 CHY zinc finger; Region: zf-CHY; pfam05495 1231389001234 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1231389001235 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1231389001236 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 1231389001237 nucleoside/Zn binding site; other site 1231389001238 dimer interface [polypeptide binding]; other site 1231389001239 catalytic motif [active] 1231389001240 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1231389001241 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 1231389001242 active site 1231389001243 dimer interface [polypeptide binding]; other site 1231389001244 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 1231389001245 dimer interface [polypeptide binding]; other site 1231389001246 active site 1231389001247 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1231389001248 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1231389001249 Rhomboid family; Region: Rhomboid; pfam01694 1231389001250 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1231389001251 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 1231389001252 ligand binding site [chemical binding]; other site 1231389001253 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1231389001254 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1231389001255 active site 1231389001256 tetramer interface; other site 1231389001257 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1231389001258 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1231389001259 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1231389001260 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1231389001261 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1231389001262 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1231389001263 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1231389001264 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 1231389001265 G-X-X-G motif; other site 1231389001266 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 1231389001267 RxxxH motif; other site 1231389001268 hypothetical protein; Provisional; Region: PRK13662 1231389001269 recombination regulator RecX; Provisional; Region: recX; PRK14135 1231389001270 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1231389001271 TRAM domain; Region: TRAM; pfam01938 1231389001272 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 1231389001273 S-adenosylmethionine binding site [chemical binding]; other site 1231389001274 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1231389001275 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1231389001276 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1231389001277 Coenzyme A binding pocket [chemical binding]; other site 1231389001278 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 1231389001279 putative active site [active] 1231389001280 catalytic triad [active] 1231389001281 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 1231389001282 PA/protease domain interface [polypeptide binding]; other site 1231389001283 putative integrin binding motif; other site 1231389001284 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 1231389001285 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 1231389001286 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 1231389001287 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1231389001288 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1231389001289 Probable Catalytic site; other site 1231389001290 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1231389001291 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1231389001292 dimer interface [polypeptide binding]; other site 1231389001293 putative radical transfer pathway; other site 1231389001294 diiron center [ion binding]; other site 1231389001295 tyrosyl radical; other site 1231389001296 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1231389001297 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07187 1231389001298 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1231389001299 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1231389001300 active site 1231389001301 dimer interface [polypeptide binding]; other site 1231389001302 catalytic residues [active] 1231389001303 effector binding site; other site 1231389001304 R2 peptide binding site; other site 1231389001305 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]; Region: COG3576 1231389001306 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1231389001307 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; pfam10078 1231389001308 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1231389001309 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1231389001310 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1231389001311 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1231389001312 DNA binding residues [nucleotide binding] 1231389001313 putative dimer interface [polypeptide binding]; other site 1231389001314 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 1231389001315 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1231389001316 catalytic Zn binding site [ion binding]; other site 1231389001317 NAD(P) binding site [chemical binding]; other site 1231389001318 structural Zn binding site [ion binding]; other site 1231389001319 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 1231389001320 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1231389001321 active site 1231389001322 catalytic tetrad [active] 1231389001323 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1231389001324 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1231389001325 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1231389001326 Cupin domain; Region: Cupin_2; cl17218 1231389001327 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1231389001328 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1231389001329 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1231389001330 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1231389001331 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 1231389001332 active site 1231389001333 P-loop; other site 1231389001334 phosphorylation site [posttranslational modification] 1231389001335 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 1231389001336 active site 1231389001337 phosphorylation site [posttranslational modification] 1231389001338 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 1231389001339 active site 1231389001340 phosphorylation site [posttranslational modification] 1231389001341 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 1231389001342 active site 1231389001343 P-loop; other site 1231389001344 phosphorylation site [posttranslational modification] 1231389001345 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1231389001346 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1231389001347 rhamnulose-1-phosphate aldolase; Provisional; Region: PRK03634 1231389001348 intersubunit interface [polypeptide binding]; other site 1231389001349 active site 1231389001350 Zn2+ binding site [ion binding]; other site 1231389001351 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 1231389001352 active site 1231389001353 phosphorylation site [posttranslational modification] 1231389001354 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1231389001355 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1231389001356 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 1231389001357 active site 1231389001358 P-loop; other site 1231389001359 phosphorylation site [posttranslational modification] 1231389001360 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1231389001361 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1231389001362 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1231389001363 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1231389001364 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1231389001365 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1231389001366 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1231389001367 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 1231389001368 putative PBP binding loops; other site 1231389001369 ABC-ATPase subunit interface; other site 1231389001370 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1231389001371 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 1231389001372 dimer interface [polypeptide binding]; other site 1231389001373 conserved gate region; other site 1231389001374 putative PBP binding loops; other site 1231389001375 ABC-ATPase subunit interface; other site 1231389001376 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 1231389001377 Melibiase; Region: Melibiase; pfam02065 1231389001378 galactokinase; Provisional; Region: PRK05322 1231389001379 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1231389001380 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1231389001381 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1231389001382 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1231389001383 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1231389001384 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 1231389001385 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1231389001386 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1231389001387 NAD binding site [chemical binding]; other site 1231389001388 homodimer interface [polypeptide binding]; other site 1231389001389 active site 1231389001390 substrate binding site [chemical binding]; other site 1231389001391 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 1231389001392 active site 1231389001393 catalytic residues [active] 1231389001394 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 1231389001395 catalytic residues [active] 1231389001396 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 1231389001397 hypothetical protein; Provisional; Region: PRK07758 1231389001398 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1231389001399 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1231389001400 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1231389001401 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1231389001402 active site 1231389001403 HIGH motif; other site 1231389001404 nucleotide binding site [chemical binding]; other site 1231389001405 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1231389001406 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1231389001407 active site 1231389001408 KMSKS motif; other site 1231389001409 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1231389001410 tRNA binding surface [nucleotide binding]; other site 1231389001411 anticodon binding site; other site 1231389001412 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1231389001413 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1231389001414 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 1231389001415 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 1231389001416 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 1231389001417 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1231389001418 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 1231389001419 CRISPR-associated protein Cas4 (RecB family exonuclease) [Defense mechanisms]; Region: COG1468 1231389001420 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1231389001421 Protein of unknown function (DUF419); Region: DUF419; pfam04237 1231389001422 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 1231389001423 dimer interface [polypeptide binding]; other site 1231389001424 active site 1231389001425 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 1231389001426 catalytic residues [active] 1231389001427 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1231389001428 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 1231389001429 S-adenosylmethionine binding site [chemical binding]; other site 1231389001430 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1231389001431 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1231389001432 active site 1231389001433 (T/H)XGH motif; other site 1231389001434 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1231389001435 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1231389001436 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 1231389001437 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1231389001438 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 1231389001439 FeS/SAM binding site; other site 1231389001440 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1231389001441 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1231389001442 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1231389001443 Walker A/P-loop; other site 1231389001444 ATP binding site [chemical binding]; other site 1231389001445 Q-loop/lid; other site 1231389001446 ABC transporter signature motif; other site 1231389001447 Walker B; other site 1231389001448 D-loop; other site 1231389001449 H-loop/switch region; other site 1231389001450 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1231389001451 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1231389001452 glutamine binding [chemical binding]; other site 1231389001453 catalytic triad [active] 1231389001454 BioY family; Region: BioY; pfam02632 1231389001455 biotin synthase; Region: bioB; TIGR00433 1231389001456 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 1231389001457 FeS/SAM binding site; other site 1231389001458 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1231389001459 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 1231389001460 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1231389001461 dimer interface [polypeptide binding]; other site 1231389001462 active site 1231389001463 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1231389001464 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1231389001465 active site 1231389001466 CoA binding site [chemical binding]; other site 1231389001467 AMP binding site [chemical binding]; other site 1231389001468 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1231389001469 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1231389001470 minor groove reading motif; other site 1231389001471 helix-hairpin-helix signature motif; other site 1231389001472 substrate binding pocket [chemical binding]; other site 1231389001473 active site 1231389001474 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1231389001475 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 1231389001476 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 1231389001477 active site residue [active] 1231389001478 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1231389001479 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1231389001480 G1 box; other site 1231389001481 putative GEF interaction site [polypeptide binding]; other site 1231389001482 GTP/Mg2+ binding site [chemical binding]; other site 1231389001483 Switch I region; other site 1231389001484 G2 box; other site 1231389001485 G3 box; other site 1231389001486 Switch II region; other site 1231389001487 G4 box; other site 1231389001488 G5 box; other site 1231389001489 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 1231389001490 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 1231389001491 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 1231389001492 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1231389001493 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 1231389001494 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1231389001495 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1231389001496 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1231389001497 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 1231389001498 homodimer interface [polypeptide binding]; other site 1231389001499 active site 1231389001500 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1231389001501 Cell division protein FtsQ; Region: FtsQ; pfam03799 1231389001502 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1231389001503 Cell division protein FtsA; Region: FtsA; smart00842 1231389001504 Cell division protein FtsA; Region: FtsA; pfam14450 1231389001505 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 1231389001506 cell division protein FtsZ; Validated; Region: PRK09330 1231389001507 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 1231389001508 nucleotide binding site [chemical binding]; other site 1231389001509 SulA interaction site; other site 1231389001510 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1231389001511 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1231389001512 catalytic residue [active] 1231389001513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1231389001514 YGGT family; Region: YGGT; pfam02325 1231389001515 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1231389001516 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 1231389001517 RNA binding surface [nucleotide binding]; other site 1231389001518 DivIVA protein; Region: DivIVA; pfam05103 1231389001519 DivIVA domain; Region: DivI1A_domain; TIGR03544 1231389001520 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 1231389001521 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1231389001522 active site 1231389001523 HIGH motif; other site 1231389001524 nucleotide binding site [chemical binding]; other site 1231389001525 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1231389001526 active site 1231389001527 KMSKS motif; other site 1231389001528 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1231389001529 tRNA binding surface [nucleotide binding]; other site 1231389001530 anticodon binding site; other site 1231389001531 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 1231389001532 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 1231389001533 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1231389001534 Walker A motif; other site 1231389001535 ATP binding site [chemical binding]; other site 1231389001536 Walker B motif; other site 1231389001537 arginine finger; other site 1231389001538 UvrB/uvrC motif; Region: UVR; pfam02151 1231389001539 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 1231389001540 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1231389001541 Walker A motif; other site 1231389001542 ATP binding site [chemical binding]; other site 1231389001543 Walker B motif; other site 1231389001544 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1231389001545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4703 1231389001546 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1231389001547 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 1231389001548 dimer interface [polypeptide binding]; other site 1231389001549 conserved gate region; other site 1231389001550 putative PBP binding loops; other site 1231389001551 ABC-ATPase subunit interface; other site 1231389001552 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1231389001553 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1231389001554 Walker A/P-loop; other site 1231389001555 ATP binding site [chemical binding]; other site 1231389001556 Q-loop/lid; other site 1231389001557 ABC transporter signature motif; other site 1231389001558 Walker B; other site 1231389001559 D-loop; other site 1231389001560 H-loop/switch region; other site 1231389001561 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1231389001562 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 1231389001563 active site 1231389001564 substrate binding site [chemical binding]; other site 1231389001565 metal binding site [ion binding]; metal-binding site 1231389001566 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 1231389001567 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1231389001568 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1231389001569 homodimer interface [polypeptide binding]; other site 1231389001570 NADP binding site [chemical binding]; other site 1231389001571 substrate binding site [chemical binding]; other site 1231389001572 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 1231389001573 putative substrate binding site [chemical binding]; other site 1231389001574 putative ATP binding site [chemical binding]; other site 1231389001575 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1231389001576 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 1231389001577 generic binding surface II; other site 1231389001578 generic binding surface I; other site 1231389001579 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1231389001580 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1231389001581 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1231389001582 substrate binding pocket [chemical binding]; other site 1231389001583 chain length determination region; other site 1231389001584 substrate-Mg2+ binding site; other site 1231389001585 catalytic residues [active] 1231389001586 aspartate-rich region 1; other site 1231389001587 active site lid residues [active] 1231389001588 aspartate-rich region 2; other site 1231389001589 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1231389001590 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 1231389001591 RNA binding surface [nucleotide binding]; other site 1231389001592 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1231389001593 Arginine repressor [Transcription]; Region: ArgR; COG1438 1231389001594 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1231389001595 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1231389001596 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1231389001597 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1231389001598 Walker A/P-loop; other site 1231389001599 ATP binding site [chemical binding]; other site 1231389001600 Q-loop/lid; other site 1231389001601 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1231389001602 ABC transporter signature motif; other site 1231389001603 Walker B; other site 1231389001604 D-loop; other site 1231389001605 H-loop/switch region; other site 1231389001606 EDD domain protein, DegV family; Region: DegV; TIGR00762 1231389001607 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1231389001608 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 1231389001609 active site 1231389001610 catalytic triad [active] 1231389001611 oxyanion hole [active] 1231389001612 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 1231389001613 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 1231389001614 IHF dimer interface [polypeptide binding]; other site 1231389001615 IHF - DNA interface [nucleotide binding]; other site 1231389001616 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1231389001617 Dihydroorotate dehydrogenase (DHOD) class 1A 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_1A_like; cd04741 1231389001618 active site 1231389001619 FMN binding site [chemical binding]; other site 1231389001620 substrate binding site [chemical binding]; other site 1231389001621 catalytic residues [active] 1231389001622 homodimer interface [polypeptide binding]; other site 1231389001623 FemAB family; Region: FemAB; pfam02388 1231389001624 FemAB family; Region: FemAB; pfam02388 1231389001625 FemAB family; Region: FemAB; pfam02388 1231389001626 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1231389001627 sugar phosphate phosphatase; Provisional; Region: PRK10513 1231389001628 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 1231389001629 active site 1231389001630 motif I; other site 1231389001631 motif II; other site 1231389001632 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 1231389001633 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1231389001634 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1231389001635 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1231389001636 Zn2+ binding site [ion binding]; other site 1231389001637 Mg2+ binding site [ion binding]; other site 1231389001638 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 1231389001639 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1231389001640 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1231389001641 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1231389001642 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1231389001643 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1231389001644 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1231389001645 putative phosphoesterase; Region: acc_ester; TIGR03729 1231389001646 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1231389001647 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 1231389001648 epoxyqueuosine reductase; Region: TIGR00276 1231389001649 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1231389001650 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1231389001651 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1231389001652 RF-1 domain; Region: RF-1; pfam00472 1231389001653 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1231389001654 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389001655 Walker A/P-loop; other site 1231389001656 ATP binding site [chemical binding]; other site 1231389001657 Q-loop/lid; other site 1231389001658 ABC transporter signature motif; other site 1231389001659 Walker B; other site 1231389001660 D-loop; other site 1231389001661 H-loop/switch region; other site 1231389001662 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1231389001663 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1231389001664 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1231389001665 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1231389001666 acetoin reductase; Validated; Region: PRK08643 1231389001667 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 1231389001668 NAD binding site [chemical binding]; other site 1231389001669 homotetramer interface [polypeptide binding]; other site 1231389001670 homodimer interface [polypeptide binding]; other site 1231389001671 active site 1231389001672 substrate binding site [chemical binding]; other site 1231389001673 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 1231389001674 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1231389001675 active site 1231389001676 catalytic site [active] 1231389001677 substrate binding site [chemical binding]; other site 1231389001678 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1231389001679 ATP binding site [chemical binding]; other site 1231389001680 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1231389001681 aspartate aminotransferase; Provisional; Region: PRK05764 1231389001682 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 1231389001683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1231389001684 homodimer interface [polypeptide binding]; other site 1231389001685 catalytic residue [active] 1231389001686 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1231389001687 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 1231389001688 putative dimer interface [polypeptide binding]; other site 1231389001689 putative anticodon binding site; other site 1231389001690 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 1231389001691 homodimer interface [polypeptide binding]; other site 1231389001692 motif 1; other site 1231389001693 motif 2; other site 1231389001694 active site 1231389001695 motif 3; other site 1231389001696 NH_3: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_3; cd02653 1231389001697 active site 1231389001698 OsmC-like protein; Region: OsmC; cl00767 1231389001699 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1231389001700 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1231389001701 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 1231389001702 dimer interface [polypeptide binding]; other site 1231389001703 phosphate binding site [ion binding]; other site 1231389001704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1231389001705 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1231389001706 Peptidase family C69; Region: Peptidase_C69; pfam03577 1231389001707 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1231389001708 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 1231389001709 metal binding site [ion binding]; metal-binding site 1231389001710 YodA lipocalin-like domain; Region: YodA; pfam09223 1231389001711 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1231389001712 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1231389001713 DHH family; Region: DHH; pfam01368 1231389001714 DHHA1 domain; Region: DHHA1; pfam02272 1231389001715 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 1231389001716 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1231389001717 active site 1231389001718 purine riboside binding site [chemical binding]; other site 1231389001719 flavodoxin; Validated; Region: PRK07308 1231389001720 hypothetical protein; Provisional; Region: PRK07248 1231389001721 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1231389001722 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 1231389001723 Cl- selectivity filter; other site 1231389001724 Cl- binding residues [ion binding]; other site 1231389001725 pore gating glutamate residue; other site 1231389001726 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1231389001727 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1231389001728 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 1231389001729 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 1231389001730 motif II; other site 1231389001731 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1231389001732 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 1231389001733 Mg2+ binding site [ion binding]; other site 1231389001734 G-X-G motif; other site 1231389001735 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 1231389001736 anchoring element; other site 1231389001737 dimer interface [polypeptide binding]; other site 1231389001738 ATP binding site [chemical binding]; other site 1231389001739 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 1231389001740 active site 1231389001741 putative metal-binding site [ion binding]; other site 1231389001742 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1231389001743 septation ring formation regulator EzrA; Provisional; Region: PRK04778 1231389001744 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1231389001745 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1231389001746 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 1231389001747 motif II; other site 1231389001748 NUDIX domain; Region: NUDIX; pfam00293 1231389001749 nudix motif; other site 1231389001750 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 1231389001751 enolase; Provisional; Region: eno; PRK00077 1231389001752 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 1231389001753 dimer interface [polypeptide binding]; other site 1231389001754 metal binding site [ion binding]; metal-binding site 1231389001755 substrate binding pocket [chemical binding]; other site 1231389001756 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1231389001757 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1231389001758 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1231389001759 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 1231389001760 hinge; other site 1231389001761 active site 1231389001762 shikimate kinase; Reviewed; Region: aroK; PRK00131 1231389001763 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 1231389001764 ADP binding site [chemical binding]; other site 1231389001765 magnesium binding site [ion binding]; other site 1231389001766 putative shikimate binding site; other site 1231389001767 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1231389001768 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1231389001769 TRAM domain; Region: TRAM; cl01282 1231389001770 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 1231389001771 S-adenosylmethionine binding site [chemical binding]; other site 1231389001772 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1231389001773 CHAP domain; Region: CHAP; cl17642 1231389001774 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1231389001775 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 1231389001776 CHAP domain; Region: CHAP; cl17642 1231389001777 Beta-lactamase; Region: Beta-lactamase; pfam00144 1231389001778 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1231389001779 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1231389001780 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1231389001781 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389001782 Q-loop/lid; other site 1231389001783 ABC transporter signature motif; other site 1231389001784 Walker B; other site 1231389001785 D-loop; other site 1231389001786 H-loop/switch region; other site 1231389001787 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1231389001788 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1231389001789 active site 1231389001790 Zn binding site [ion binding]; other site 1231389001791 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1231389001792 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1231389001793 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1231389001794 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1231389001795 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1231389001796 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1231389001797 FtsX-like permease family; Region: FtsX; pfam02687 1231389001798 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1231389001799 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1231389001800 Walker A/P-loop; other site 1231389001801 ATP binding site [chemical binding]; other site 1231389001802 Q-loop/lid; other site 1231389001803 ABC transporter signature motif; other site 1231389001804 Walker B; other site 1231389001805 D-loop; other site 1231389001806 H-loop/switch region; other site 1231389001807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1231389001808 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1231389001809 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1231389001810 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1231389001811 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1231389001812 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1231389001813 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 1231389001814 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1231389001815 Walker A/P-loop; other site 1231389001816 ATP binding site [chemical binding]; other site 1231389001817 Q-loop/lid; other site 1231389001818 ABC transporter signature motif; other site 1231389001819 Walker B; other site 1231389001820 D-loop; other site 1231389001821 H-loop/switch region; other site 1231389001822 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1231389001823 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1231389001824 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1231389001825 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 1231389001826 dimerization interface [polypeptide binding]; other site 1231389001827 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 1231389001828 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 1231389001829 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 1231389001830 D-lactate dehydrogenase; Validated; Region: PRK08605 1231389001831 homodimer interface [polypeptide binding]; other site 1231389001832 ligand binding site [chemical binding]; other site 1231389001833 NAD binding site [chemical binding]; other site 1231389001834 catalytic site [active] 1231389001835 MFS/sugar transport protein; Region: MFS_2; pfam13347 1231389001836 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1231389001837 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 1231389001838 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1231389001839 substrate binding site [chemical binding]; other site 1231389001840 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1231389001841 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1231389001842 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1231389001843 DNA-binding site [nucleotide binding]; DNA binding site 1231389001844 FCD domain; Region: FCD; pfam07729 1231389001845 Glucuronate isomerase; Region: UxaC; cl00829 1231389001846 catabolite control protein A; Region: ccpA; TIGR01481 1231389001847 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1231389001848 DNA binding site [nucleotide binding] 1231389001849 domain linker motif; other site 1231389001850 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 1231389001851 dimerization interface [polypeptide binding]; other site 1231389001852 effector binding site; other site 1231389001853 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 1231389001854 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 1231389001855 active site 1231389001856 Na/Ca binding site [ion binding]; other site 1231389001857 catalytic site [active] 1231389001858 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 1231389001859 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1231389001860 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 1231389001861 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1231389001862 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 1231389001863 putative ADP-binding pocket [chemical binding]; other site 1231389001864 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1231389001865 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 1231389001866 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1231389001867 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 1231389001868 active site 1231389001869 dimer interface [polypeptide binding]; other site 1231389001870 motif 1; other site 1231389001871 motif 2; other site 1231389001872 motif 3; other site 1231389001873 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 1231389001874 anticodon binding site; other site 1231389001875 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1231389001876 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 1231389001877 active site 1231389001878 phosphorylation site [posttranslational modification] 1231389001879 intermolecular recognition site; other site 1231389001880 dimerization interface [polypeptide binding]; other site 1231389001881 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 1231389001882 DNA binding site [nucleotide binding] 1231389001883 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 1231389001884 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1231389001885 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1231389001886 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1231389001887 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 1231389001888 dimer interface [polypeptide binding]; other site 1231389001889 conserved gate region; other site 1231389001890 putative PBP binding loops; other site 1231389001891 ABC-ATPase subunit interface; other site 1231389001892 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 1231389001893 dimer interface [polypeptide binding]; other site 1231389001894 conserved gate region; other site 1231389001895 putative PBP binding loops; other site 1231389001896 ABC-ATPase subunit interface; other site 1231389001897 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 1231389001898 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 1231389001899 substrate binding pocket [chemical binding]; other site 1231389001900 membrane-bound complex binding site; other site 1231389001901 hinge residues; other site 1231389001902 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1231389001903 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1231389001904 Walker A/P-loop; other site 1231389001905 ATP binding site [chemical binding]; other site 1231389001906 Q-loop/lid; other site 1231389001907 ABC transporter signature motif; other site 1231389001908 Walker B; other site 1231389001909 D-loop; other site 1231389001910 H-loop/switch region; other site 1231389001911 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1231389001912 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 1231389001913 active site 1231389001914 phosphorylation site [posttranslational modification] 1231389001915 intermolecular recognition site; other site 1231389001916 dimerization interface [polypeptide binding]; other site 1231389001917 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 1231389001918 DNA binding site [nucleotide binding] 1231389001919 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1231389001920 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 1231389001921 putative active site [active] 1231389001922 heme pocket [chemical binding]; other site 1231389001923 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 1231389001924 dimer interface [polypeptide binding]; other site 1231389001925 phosphorylation site [posttranslational modification] 1231389001926 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 1231389001927 ATP binding site [chemical binding]; other site 1231389001928 Mg2+ binding site [ion binding]; other site 1231389001929 G-X-G motif; other site 1231389001930 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1231389001931 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1231389001932 Protein of unknown function (DUF454); Region: DUF454; cl01063 1231389001933 ribonuclease III; Reviewed; Region: rnc; PRK00102 1231389001934 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 1231389001935 dimerization interface [polypeptide binding]; other site 1231389001936 active site 1231389001937 metal binding site [ion binding]; metal-binding site 1231389001938 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 1231389001939 dsRNA binding site [nucleotide binding]; other site 1231389001940 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1231389001941 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1231389001942 Walker A/P-loop; other site 1231389001943 ATP binding site [chemical binding]; other site 1231389001944 Q-loop/lid; other site 1231389001945 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1231389001946 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1231389001947 ABC transporter signature motif; other site 1231389001948 Walker B; other site 1231389001949 D-loop; other site 1231389001950 H-loop/switch region; other site 1231389001951 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1231389001952 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 1231389001953 active site 1231389001954 motif I; other site 1231389001955 motif II; other site 1231389001956 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1231389001957 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1231389001958 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1231389001959 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1231389001960 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1231389001961 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 1231389001962 P loop; other site 1231389001963 GTP binding site [chemical binding]; other site 1231389001964 Predicted membrane protein [Function unknown]; Region: COG3689 1231389001965 Predicted permeases [General function prediction only]; Region: COG0701 1231389001966 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1231389001967 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1231389001968 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1231389001969 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 1231389001970 RNA binding site [nucleotide binding]; other site 1231389001971 SprT homologues; Region: SprT; cl01182 1231389001972 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 1231389001973 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1231389001974 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1231389001975 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 1231389001976 Hpr binding site; other site 1231389001977 active site 1231389001978 homohexamer subunit interaction site [polypeptide binding]; other site 1231389001979 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 1231389001980 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 1231389001981 YtxH-like protein; Region: YtxH; pfam12732 1231389001982 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 1231389001983 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1231389001984 Peptidase family U32; Region: Peptidase_U32; pfam01136 1231389001985 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1231389001986 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 1231389001987 Peptidase family U32; Region: Peptidase_U32; pfam01136 1231389001988 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 1231389001989 manganese transport protein MntH; Reviewed; Region: PRK00701 1231389001990 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1231389001991 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1231389001992 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 1231389001993 catalytic motif [active] 1231389001994 Zn binding site [ion binding]; other site 1231389001995 RibD C-terminal domain; Region: RibD_C; cl17279 1231389001996 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1231389001997 Lumazine binding domain; Region: Lum_binding; pfam00677 1231389001998 Lumazine binding domain; Region: Lum_binding; pfam00677 1231389001999 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1231389002000 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1231389002001 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 1231389002002 dimerization interface [polypeptide binding]; other site 1231389002003 active site 1231389002004 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 1231389002005 homopentamer interface [polypeptide binding]; other site 1231389002006 active site 1231389002007 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1231389002008 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 1231389002009 dimer interface [polypeptide binding]; other site 1231389002010 putative anticodon binding site; other site 1231389002011 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 1231389002012 motif 1; other site 1231389002013 active site 1231389002014 motif 2; other site 1231389002015 motif 3; other site 1231389002016 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1231389002017 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 1231389002018 motif II; other site 1231389002019 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 1231389002020 catalytic core [active] 1231389002021 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1231389002022 putative deacylase active site [active] 1231389002023 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1231389002024 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1231389002025 NAD(P) binding site [chemical binding]; other site 1231389002026 active site 1231389002027 PlyB is a bacteriophage endolysin that displays potent lytic activity toward Bacillus anthracis. PlyB has an N-terminal glycosyl hydrolase family 25 (GH25) catalytic domain and a C-terminal bacterial SH3-like domain, SH3b. Both domains are required for...; Region: GH25_PlyB-like; cd06523 1231389002028 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1231389002029 active site 1231389002030 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 1231389002031 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1231389002032 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1231389002033 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1231389002034 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1231389002035 elongation factor Tu; Reviewed; Region: PRK00049 1231389002036 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1231389002037 G1 box; other site 1231389002038 GEF interaction site [polypeptide binding]; other site 1231389002039 GTP/Mg2+ binding site [chemical binding]; other site 1231389002040 Switch I region; other site 1231389002041 G2 box; other site 1231389002042 G3 box; other site 1231389002043 Switch II region; other site 1231389002044 G4 box; other site 1231389002045 G5 box; other site 1231389002046 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 1231389002047 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 1231389002048 Antibiotic Binding Site [chemical binding]; other site 1231389002049 triosephosphate isomerase; Provisional; Region: PRK14567 1231389002050 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 1231389002051 substrate binding site [chemical binding]; other site 1231389002052 dimer interface [polypeptide binding]; other site 1231389002053 catalytic triad [active] 1231389002054 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 1231389002055 catalytic core [active] 1231389002056 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 1231389002057 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1231389002058 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1231389002059 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1231389002060 recombination protein RecR; Reviewed; Region: recR; PRK00076 1231389002061 RecR protein; Region: RecR; pfam02132 1231389002062 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 1231389002063 putative active site [active] 1231389002064 putative metal-binding site [ion binding]; other site 1231389002065 tetramer interface [polypeptide binding]; other site 1231389002066 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1231389002067 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1231389002068 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1231389002069 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1231389002070 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1231389002071 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1231389002072 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1231389002073 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 1231389002074 putative substrate translocation pore; other site 1231389002075 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 1231389002076 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1231389002077 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1231389002078 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1231389002079 G1 box; other site 1231389002080 putative GEF interaction site [polypeptide binding]; other site 1231389002081 GTP/Mg2+ binding site [chemical binding]; other site 1231389002082 Switch I region; other site 1231389002083 G2 box; other site 1231389002084 G3 box; other site 1231389002085 Switch II region; other site 1231389002086 G4 box; other site 1231389002087 G5 box; other site 1231389002088 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1231389002089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389002090 Q-loop/lid; other site 1231389002091 ABC transporter signature motif; other site 1231389002092 Walker B; other site 1231389002093 D-loop; other site 1231389002094 H-loop/switch region; other site 1231389002095 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 1231389002096 dimer interface [polypeptide binding]; other site 1231389002097 conserved gate region; other site 1231389002098 putative PBP binding loops; other site 1231389002099 ABC-ATPase subunit interface; other site 1231389002100 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1231389002101 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1231389002102 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1231389002103 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 1231389002104 ATP binding site [chemical binding]; other site 1231389002105 Mg++ binding site [ion binding]; other site 1231389002106 motif III; other site 1231389002107 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 1231389002108 nucleotide binding region [chemical binding]; other site 1231389002109 ATP-binding site [chemical binding]; other site 1231389002110 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1231389002111 GIY-YIG motif/motif A; other site 1231389002112 putative active site [active] 1231389002113 putative metal binding site [ion binding]; other site 1231389002114 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1231389002115 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1231389002116 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1231389002117 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1231389002118 putative acyl-acceptor binding pocket; other site 1231389002119 SLBB domain; Region: SLBB; pfam10531 1231389002120 comEA protein; Region: comE; TIGR01259 1231389002121 Fingers domain of DNA polymerase lambda; Region: DNA_pol_lambd_f; pfam10391 1231389002122 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1231389002123 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1231389002124 Competence protein; Region: Competence; pfam03772 1231389002125 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1231389002126 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1231389002127 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1231389002128 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 1231389002129 active site 1231389002130 motif I; other site 1231389002131 motif II; other site 1231389002132 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1231389002133 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1231389002134 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1231389002135 DNA binding site [nucleotide binding] 1231389002136 domain linker motif; other site 1231389002137 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1231389002138 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1231389002139 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1231389002140 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1231389002141 S-adenosylmethionine binding site [chemical binding]; other site 1231389002142 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1231389002143 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1231389002144 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1231389002145 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1231389002146 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1231389002147 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1231389002148 CAT RNA binding domain; Region: CAT_RBD; pfam03123 1231389002149 PRD domain; Region: PRD; pfam00874 1231389002150 PRD domain; Region: PRD; pfam00874 1231389002151 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1231389002152 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 1231389002153 active site turn [active] 1231389002154 phosphorylation site [posttranslational modification] 1231389002155 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1231389002156 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 1231389002157 HPr interaction site; other site 1231389002158 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1231389002159 active site 1231389002160 phosphorylation site [posttranslational modification] 1231389002161 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1231389002162 beta-galactosidase; Region: BGL; TIGR03356 1231389002163 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1231389002164 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1231389002165 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1231389002166 glycerate kinase; Region: TIGR00045 1231389002167 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1231389002168 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1231389002169 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1231389002170 MarR family; Region: MarR_2; cl17246 1231389002171 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1231389002172 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1231389002173 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1231389002174 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1231389002175 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 1231389002176 active site 1231389002177 trimer interface [polypeptide binding]; other site 1231389002178 allosteric site; other site 1231389002179 active site lid [active] 1231389002180 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1231389002181 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1231389002182 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1231389002183 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1231389002184 putative dimer interface [polypeptide binding]; other site 1231389002185 N-terminal domain interface [polypeptide binding]; other site 1231389002186 putative substrate binding pocket (H-site) [chemical binding]; other site 1231389002187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1231389002188 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 1231389002189 RNA binding surface [nucleotide binding]; other site 1231389002190 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1231389002191 active site 1231389002192 uracil binding [chemical binding]; other site 1231389002193 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1231389002194 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 1231389002195 putative substrate translocation pore; other site 1231389002196 Competence protein CoiA-like family; Region: CoiA; pfam06054 1231389002197 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 1231389002198 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1231389002199 active site 1231389002200 Zn binding site [ion binding]; other site 1231389002201 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1231389002202 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 1231389002203 motif II; other site 1231389002204 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1231389002205 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 1231389002206 S-adenosylmethionine binding site [chemical binding]; other site 1231389002207 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 1231389002208 Tubby C 2; Region: Tub_2; cl02043 1231389002209 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1231389002210 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 1231389002211 motif 1; other site 1231389002212 active site 1231389002213 motif 2; other site 1231389002214 motif 3; other site 1231389002215 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1231389002216 DHHA1 domain; Region: DHHA1; pfam02272 1231389002217 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1231389002218 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 1231389002219 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1231389002220 Ligand binding site; other site 1231389002221 metal-binding site 1231389002222 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 1231389002223 non-specific DNA binding site [nucleotide binding]; other site 1231389002224 salt bridge; other site 1231389002225 sequence-specific DNA binding site [nucleotide binding]; other site 1231389002226 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; cl17491 1231389002227 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1231389002228 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1231389002229 dimer interface [polypeptide binding]; other site 1231389002230 putative radical transfer pathway; other site 1231389002231 diiron center [ion binding]; other site 1231389002232 tyrosyl radical; other site 1231389002233 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 1231389002234 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1231389002235 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1231389002236 active site 1231389002237 dimer interface [polypeptide binding]; other site 1231389002238 catalytic residues [active] 1231389002239 effector binding site; other site 1231389002240 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1231389002241 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 1231389002242 catalytic residues [active] 1231389002243 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 1231389002244 dimerization domain swap beta strand [polypeptide binding]; other site 1231389002245 regulatory protein interface [polypeptide binding]; other site 1231389002246 active site 1231389002247 regulatory phosphorylation site [posttranslational modification]; other site 1231389002248 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1231389002249 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1231389002250 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1231389002251 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1231389002252 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 1231389002253 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 1231389002254 tetrameric interface [polypeptide binding]; other site 1231389002255 activator binding site; other site 1231389002256 NADP binding site [chemical binding]; other site 1231389002257 substrate binding site [chemical binding]; other site 1231389002258 catalytic residues [active] 1231389002259 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1231389002260 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1231389002261 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1231389002262 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 1231389002263 ATP binding site [chemical binding]; other site 1231389002264 putative Mg++ binding site [ion binding]; other site 1231389002265 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 1231389002266 nucleotide binding region [chemical binding]; other site 1231389002267 ATP-binding site [chemical binding]; other site 1231389002268 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1231389002269 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 1231389002270 Sugar specificity; other site 1231389002271 Pyrimidine base specificity; other site 1231389002272 ATP-binding site [chemical binding]; other site 1231389002273 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1231389002274 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1231389002275 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 1231389002276 Walker A motif; other site 1231389002277 ATP binding site [chemical binding]; other site 1231389002278 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1231389002279 Walker B motif; other site 1231389002280 arginine finger; other site 1231389002281 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1231389002282 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 1231389002283 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1231389002284 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1231389002285 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1231389002286 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1231389002287 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1231389002288 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1231389002289 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1231389002290 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1231389002291 Staphylococcus aureus coagulase; Region: Coagulase; pfam08764 1231389002292 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 1231389002293 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 1231389002294 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1231389002295 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1231389002296 Walker A/P-loop; other site 1231389002297 ATP binding site [chemical binding]; other site 1231389002298 Q-loop/lid; other site 1231389002299 ABC transporter signature motif; other site 1231389002300 Walker B; other site 1231389002301 D-loop; other site 1231389002302 H-loop/switch region; other site 1231389002303 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389002304 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1231389002305 Walker A/P-loop; other site 1231389002306 ATP binding site [chemical binding]; other site 1231389002307 Q-loop/lid; other site 1231389002308 ABC transporter signature motif; other site 1231389002309 Walker B; other site 1231389002310 D-loop; other site 1231389002311 H-loop/switch region; other site 1231389002312 Cobalt transport protein; Region: CbiQ; cl00463 1231389002313 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1231389002314 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 1231389002315 substrate binding site [chemical binding]; other site 1231389002316 dimer interface [polypeptide binding]; other site 1231389002317 ATP binding site [chemical binding]; other site 1231389002318 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 1231389002319 substrate binding site [chemical binding]; other site 1231389002320 multimerization interface [polypeptide binding]; other site 1231389002321 ATP binding site [chemical binding]; other site 1231389002322 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 1231389002323 thiamine phosphate binding site [chemical binding]; other site 1231389002324 active site 1231389002325 pyrophosphate binding site [ion binding]; other site 1231389002326 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1231389002327 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 1231389002328 hinge; other site 1231389002329 active site 1231389002330 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1231389002331 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1231389002332 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1231389002333 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1231389002334 DNA-binding site [nucleotide binding]; DNA binding site 1231389002335 DRTGG domain; Region: DRTGG; pfam07085 1231389002336 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 1231389002337 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 1231389002338 active site 1231389002339 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1231389002340 GtrA-like protein; Region: GtrA; pfam04138 1231389002341 Predicted membrane protein [Function unknown]; Region: COG4708 1231389002342 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1231389002343 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 1231389002344 nucleotide binding pocket [chemical binding]; other site 1231389002345 K-X-D-G motif; other site 1231389002346 catalytic site [active] 1231389002347 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1231389002348 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1231389002349 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 1231389002350 Dimer interface [polypeptide binding]; other site 1231389002351 BRCT sequence motif; other site 1231389002352 putative lipid kinase; Reviewed; Region: PRK13055 1231389002353 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1231389002354 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl17465 1231389002355 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1231389002356 carbohydrate binding site [chemical binding]; other site 1231389002357 pullulanase, type I; Region: pulA_typeI; TIGR02104 1231389002358 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 1231389002359 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 1231389002360 Ca binding site [ion binding]; other site 1231389002361 active site 1231389002362 catalytic site [active] 1231389002363 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1231389002364 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1231389002365 active site 1231389002366 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1231389002367 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1231389002368 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 1231389002369 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1231389002370 ligand binding site; other site 1231389002371 oligomer interface; other site 1231389002372 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 1231389002373 dimer interface [polypeptide binding]; other site 1231389002374 N-terminal domain interface [polypeptide binding]; other site 1231389002375 sulfate 1 binding site; other site 1231389002376 F0F1 ATP synthase subunit C; Provisional; Region: PRK13467 1231389002377 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1231389002378 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1231389002379 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1231389002380 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1231389002381 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1231389002382 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1231389002383 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1231389002384 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1231389002385 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 1231389002386 beta subunit interaction interface [polypeptide binding]; other site 1231389002387 Walker A motif; other site 1231389002388 ATP binding site [chemical binding]; other site 1231389002389 Walker B motif; other site 1231389002390 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1231389002391 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1231389002392 core domain interface [polypeptide binding]; other site 1231389002393 delta subunit interface [polypeptide binding]; other site 1231389002394 epsilon subunit interface [polypeptide binding]; other site 1231389002395 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1231389002396 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1231389002397 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 1231389002398 alpha subunit interaction interface [polypeptide binding]; other site 1231389002399 Walker A motif; other site 1231389002400 ATP binding site [chemical binding]; other site 1231389002401 Walker B motif; other site 1231389002402 inhibitor binding site; inhibition site 1231389002403 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1231389002404 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1231389002405 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1231389002406 gamma subunit interface [polypeptide binding]; other site 1231389002407 epsilon subunit interface [polypeptide binding]; other site 1231389002408 LBP interface [polypeptide binding]; other site 1231389002409 conserved hypothetical integral membrane protein; Region: int_mem_ywzB; TIGR02327 1231389002410 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1231389002411 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 1231389002412 hinge; other site 1231389002413 active site 1231389002414 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 1231389002415 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; pfam01223 1231389002416 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1231389002417 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1231389002418 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1231389002419 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 1231389002420 dimer interface [polypeptide binding]; other site 1231389002421 motif 1; other site 1231389002422 active site 1231389002423 motif 2; other site 1231389002424 motif 3; other site 1231389002425 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1231389002426 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1231389002427 Coenzyme A binding pocket [chemical binding]; other site 1231389002428 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1231389002429 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 1231389002430 putative tRNA-binding site [nucleotide binding]; other site 1231389002431 B3/4 domain; Region: B3_4; pfam03483 1231389002432 tRNA synthetase B5 domain; Region: B5; smart00874 1231389002433 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 1231389002434 dimer interface [polypeptide binding]; other site 1231389002435 motif 1; other site 1231389002436 motif 3; other site 1231389002437 motif 2; other site 1231389002438 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1231389002439 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1231389002440 Predicted metalloprotease [General function prediction only]; Region: COG2321 1231389002441 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 1231389002442 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1231389002443 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1231389002444 Part of AAA domain; Region: AAA_19; pfam13245 1231389002445 Family description; Region: UvrD_C_2; pfam13538 1231389002446 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1231389002447 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1231389002448 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1231389002449 Cl binding site [ion binding]; other site 1231389002450 oligomer interface [polypeptide binding]; other site 1231389002451 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1231389002452 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1231389002453 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1231389002454 G1 box; other site 1231389002455 GTP/Mg2+ binding site [chemical binding]; other site 1231389002456 Switch I region; other site 1231389002457 G2 box; other site 1231389002458 Switch II region; other site 1231389002459 G3 box; other site 1231389002460 G4 box; other site 1231389002461 G5 box; other site 1231389002462 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1231389002463 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1231389002464 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1231389002465 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1231389002466 ABC transporter; Region: ABC_tran_2; pfam12848 1231389002467 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1231389002468 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1231389002469 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 1231389002470 tetramer interface [polypeptide binding]; other site 1231389002471 TPP-binding site [chemical binding]; other site 1231389002472 heterodimer interface [polypeptide binding]; other site 1231389002473 phosphorylation loop region [posttranslational modification] 1231389002474 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1231389002475 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 1231389002476 alpha subunit interface [polypeptide binding]; other site 1231389002477 TPP binding site [chemical binding]; other site 1231389002478 heterodimer interface [polypeptide binding]; other site 1231389002479 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1231389002480 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1231389002481 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 1231389002482 E3 interaction surface; other site 1231389002483 lipoyl attachment site [posttranslational modification]; other site 1231389002484 e3 binding domain; Region: E3_binding; pfam02817 1231389002485 e3 binding domain; Region: E3_binding; pfam02817 1231389002486 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1231389002487 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 1231389002488 E3 interaction surface; other site 1231389002489 lipoyl attachment site [posttranslational modification]; other site 1231389002490 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 1231389002491 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1231389002492 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1231389002493 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1231389002494 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1231389002495 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1231389002496 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1231389002497 catalytic triad [active] 1231389002498 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1231389002499 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1231389002500 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1231389002501 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1231389002502 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1231389002503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1231389002504 YbbR-like protein; Region: YbbR; pfam07949 1231389002505 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1231389002506 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 1231389002507 active site 1231389002508 substrate binding site [chemical binding]; other site 1231389002509 metal binding site [ion binding]; metal-binding site 1231389002510 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 1231389002511 conserved hypothetical protein; Region: TIGR02328 1231389002512 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1231389002513 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1231389002514 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 1231389002515 FeS/SAM binding site; other site 1231389002516 HemN C-terminal domain; Region: HemN_C; pfam06969 1231389002517 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 1231389002518 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 1231389002519 active site 1231389002520 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 1231389002521 active site 2 [active] 1231389002522 active site 1 [active] 1231389002523 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1231389002524 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 1231389002525 active site 1231389002526 motif I; other site 1231389002527 motif II; other site 1231389002528 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 1231389002529 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 1231389002530 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; cl00083 1231389002531 CRISPR/Cas system-associated protein Cas9; Region: Csn1; cd09643 1231389002532 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 1231389002533 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 1231389002534 CRISPR/Cas system-associated protein Csn2; Region: Csn2; cd09758 1231389002535 CRISPR type II-A/NMEMI-associated protein Csn2; Region: cas_Csn2; TIGR01866 1231389002536 tetramer interface [polypeptide binding]; other site 1231389002537 putative DNA binding site [nucleotide binding]; other site 1231389002538 Ca binding site [ion binding]; other site 1231389002539 Ca binding site [ion binding]; other site 1231389002540 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 1231389002541 active site 1231389002542 multimer interface [polypeptide binding]; other site 1231389002543 GTP-binding protein LepA; Provisional; Region: PRK05433 1231389002544 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1231389002545 G1 box; other site 1231389002546 putative GEF interaction site [polypeptide binding]; other site 1231389002547 GTP/Mg2+ binding site [chemical binding]; other site 1231389002548 Switch I region; other site 1231389002549 G2 box; other site 1231389002550 G3 box; other site 1231389002551 Switch II region; other site 1231389002552 G4 box; other site 1231389002553 G5 box; other site 1231389002554 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 1231389002555 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 1231389002556 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1231389002557 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1231389002558 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1231389002559 Zn2+ binding site [ion binding]; other site 1231389002560 Mg2+ binding site [ion binding]; other site 1231389002561 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1231389002562 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1231389002563 Coenzyme A binding pocket [chemical binding]; other site 1231389002564 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1231389002565 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1231389002566 SelR domain; Region: SelR; pfam01641 1231389002567 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1231389002568 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1231389002569 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1231389002570 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1231389002571 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 1231389002572 motif II; other site 1231389002573 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1231389002574 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 1231389002575 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1231389002576 trimer interface [polypeptide binding]; other site 1231389002577 active site 1231389002578 substrate binding site [chemical binding]; other site 1231389002579 CoA binding site [chemical binding]; other site 1231389002580 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1231389002581 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1231389002582 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1231389002583 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1231389002584 Walker A/P-loop; other site 1231389002585 ATP binding site [chemical binding]; other site 1231389002586 Q-loop/lid; other site 1231389002587 ABC transporter signature motif; other site 1231389002588 Walker B; other site 1231389002589 D-loop; other site 1231389002590 H-loop/switch region; other site 1231389002591 Predicted transcriptional regulators [Transcription]; Region: COG1725 1231389002592 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1231389002593 DNA-binding site [nucleotide binding]; DNA binding site 1231389002594 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 1231389002595 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 1231389002596 active site 1231389002597 PHP Thumb interface [polypeptide binding]; other site 1231389002598 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 1231389002599 generic binding surface II; other site 1231389002600 generic binding surface I; other site 1231389002601 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 1231389002602 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1231389002603 active site 1231389002604 ADP/pyrophosphate binding site [chemical binding]; other site 1231389002605 dimerization interface [polypeptide binding]; other site 1231389002606 allosteric effector site; other site 1231389002607 fructose-1,6-bisphosphate binding site; other site 1231389002608 pyruvate kinase; Provisional; Region: PRK05826 1231389002609 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1231389002610 domain interfaces; other site 1231389002611 active site 1231389002612 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1231389002613 Peptidase S24-like; Region: Peptidase_S24; pfam00717 1231389002614 Catalytic site [active] 1231389002615 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 1231389002616 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1231389002617 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 1231389002618 glutaminase active site [active] 1231389002619 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 1231389002620 dimer interface [polypeptide binding]; other site 1231389002621 active site 1231389002622 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 1231389002623 dimer interface [polypeptide binding]; other site 1231389002624 active site 1231389002625 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1231389002626 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1231389002627 PhnA protein; Region: PhnA; pfam03831 1231389002628 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 1231389002629 dimer interface [polypeptide binding]; other site 1231389002630 conserved gate region; other site 1231389002631 putative PBP binding loops; other site 1231389002632 ABC-ATPase subunit interface; other site 1231389002633 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1231389002634 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389002635 Walker A/P-loop; other site 1231389002636 ATP binding site [chemical binding]; other site 1231389002637 Q-loop/lid; other site 1231389002638 ABC transporter signature motif; other site 1231389002639 Walker B; other site 1231389002640 D-loop; other site 1231389002641 H-loop/switch region; other site 1231389002642 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1231389002643 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 1231389002644 substrate binding pocket [chemical binding]; other site 1231389002645 membrane-bound complex binding site; other site 1231389002646 hinge residues; other site 1231389002647 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1231389002648 pantothenate kinase; Provisional; Region: PRK05439 1231389002649 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1231389002650 ATP-binding site [chemical binding]; other site 1231389002651 CoA-binding site [chemical binding]; other site 1231389002652 Mg2+-binding site [ion binding]; other site 1231389002653 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1231389002654 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 1231389002655 S-adenosylmethionine binding site [chemical binding]; other site 1231389002656 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 1231389002657 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1231389002658 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1231389002659 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1231389002660 Q-loop/lid; other site 1231389002661 ABC transporter signature motif; other site 1231389002662 Walker B; other site 1231389002663 D-loop; other site 1231389002664 H-loop/switch region; other site 1231389002665 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1231389002666 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1231389002667 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 1231389002668 TM-ABC transporter signature motif; other site 1231389002669 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1231389002670 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 1231389002671 TM-ABC transporter signature motif; other site 1231389002672 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1231389002673 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1231389002674 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1231389002675 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1231389002676 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1231389002677 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1231389002678 NAD binding site [chemical binding]; other site 1231389002679 dimer interface [polypeptide binding]; other site 1231389002680 substrate binding site [chemical binding]; other site 1231389002681 DNA gyrase subunit A; Validated; Region: PRK05560 1231389002682 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 1231389002683 CAP-like domain; other site 1231389002684 active site 1231389002685 primary dimer interface [polypeptide binding]; other site 1231389002686 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1231389002687 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1231389002688 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1231389002689 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1231389002690 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1231389002691 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1231389002692 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 1231389002693 active site 1231389002694 catalytic site [active] 1231389002695 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 1231389002696 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1231389002697 putative metal binding site [ion binding]; other site 1231389002698 Predicted secreted protein [Function unknown]; Region: COG4086 1231389002699 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 1231389002700 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1231389002701 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1231389002702 GMP synthase; Reviewed; Region: guaA; PRK00074 1231389002703 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1231389002704 AMP/PPi binding site [chemical binding]; other site 1231389002705 candidate oxyanion hole; other site 1231389002706 catalytic triad [active] 1231389002707 potential glutamine specificity residues [chemical binding]; other site 1231389002708 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 1231389002709 ATP Binding subdomain [chemical binding]; other site 1231389002710 Dimerization subdomain; other site 1231389002711 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1231389002712 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1231389002713 DNA-binding site [nucleotide binding]; DNA binding site 1231389002714 UTRA domain; Region: UTRA; pfam07702 1231389002715 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1231389002716 Glucose inhibited division protein A; Region: GIDA; pfam01134 1231389002717 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1231389002718 Coenzyme A binding pocket [chemical binding]; other site 1231389002719 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1231389002720 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1231389002721 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 1231389002722 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 1231389002723 Active site serine [active] 1231389002724 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1231389002725 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1231389002726 Walker A/P-loop; other site 1231389002727 ATP binding site [chemical binding]; other site 1231389002728 Q-loop/lid; other site 1231389002729 ABC transporter signature motif; other site 1231389002730 Walker B; other site 1231389002731 D-loop; other site 1231389002732 H-loop/switch region; other site 1231389002733 FtsX-like permease family; Region: FtsX; pfam02687 1231389002734 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1231389002735 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 1231389002736 active site 1231389002737 phosphorylation site [posttranslational modification] 1231389002738 intermolecular recognition site; other site 1231389002739 dimerization interface [polypeptide binding]; other site 1231389002740 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 1231389002741 DNA binding site [nucleotide binding] 1231389002742 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1231389002743 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; cl00080 1231389002744 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 1231389002745 ATP binding site [chemical binding]; other site 1231389002746 Mg2+ binding site [ion binding]; other site 1231389002747 G-X-G motif; other site 1231389002748 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 1231389002749 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 1231389002750 active site 1231389002751 DNA binding site [nucleotide binding] 1231389002752 Int/Topo IB signature motif; other site 1231389002753 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1231389002754 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 1231389002755 signal recognition particle protein; Provisional; Region: PRK10867 1231389002756 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1231389002757 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 1231389002758 P loop; other site 1231389002759 GTP binding site [chemical binding]; other site 1231389002760 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1231389002761 putative DNA-binding protein; Validated; Region: PRK00118 1231389002762 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 1231389002763 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1231389002764 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 1231389002765 dimer interface [polypeptide binding]; other site 1231389002766 phosphorylation site [posttranslational modification] 1231389002767 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 1231389002768 ATP binding site [chemical binding]; other site 1231389002769 Mg2+ binding site [ion binding]; other site 1231389002770 G-X-G motif; other site 1231389002771 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1231389002772 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 1231389002773 active site 1231389002774 phosphorylation site [posttranslational modification] 1231389002775 intermolecular recognition site; other site 1231389002776 dimerization interface [polypeptide binding]; other site 1231389002777 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 1231389002778 DNA binding site [nucleotide binding] 1231389002779 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1231389002780 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 1231389002781 Zn binding site [ion binding]; other site 1231389002782 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1231389002783 PhoU domain; Region: PhoU; pfam01895 1231389002784 PhoU domain; Region: PhoU; pfam01895 1231389002785 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 1231389002786 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1231389002787 Walker A/P-loop; other site 1231389002788 ATP binding site [chemical binding]; other site 1231389002789 Q-loop/lid; other site 1231389002790 ABC transporter signature motif; other site 1231389002791 Walker B; other site 1231389002792 D-loop; other site 1231389002793 H-loop/switch region; other site 1231389002794 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 1231389002795 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1231389002796 Walker A/P-loop; other site 1231389002797 ATP binding site [chemical binding]; other site 1231389002798 Q-loop/lid; other site 1231389002799 ABC transporter signature motif; other site 1231389002800 Walker B; other site 1231389002801 D-loop; other site 1231389002802 H-loop/switch region; other site 1231389002803 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1231389002804 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 1231389002805 dimer interface [polypeptide binding]; other site 1231389002806 conserved gate region; other site 1231389002807 putative PBP binding loops; other site 1231389002808 ABC-ATPase subunit interface; other site 1231389002809 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1231389002810 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 1231389002811 dimer interface [polypeptide binding]; other site 1231389002812 conserved gate region; other site 1231389002813 putative PBP binding loops; other site 1231389002814 ABC-ATPase subunit interface; other site 1231389002815 PBP superfamily domain; Region: PBP_like_2; cl17296 1231389002816 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1231389002817 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1231389002818 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 1231389002819 active site 1231389002820 hypothetical protein; Provisional; Region: PRK04387 1231389002821 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 1231389002822 ArsC family; Region: ArsC; pfam03960 1231389002823 putative catalytic residues [active] 1231389002824 thiol/disulfide switch; other site 1231389002825 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1231389002826 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1231389002827 active site 1231389002828 Riboflavin kinase; Region: Flavokinase; smart00904 1231389002829 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 1231389002830 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1231389002831 RNA binding site [nucleotide binding]; other site 1231389002832 active site 1231389002833 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 1231389002834 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1231389002835 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1231389002836 Coenzyme A binding pocket [chemical binding]; other site 1231389002837 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 1231389002838 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 1231389002839 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1231389002840 CAAX protease self-immunity; Region: Abi; pfam02517 1231389002841 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1231389002842 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1231389002843 Walker A/P-loop; other site 1231389002844 ATP binding site [chemical binding]; other site 1231389002845 Q-loop/lid; other site 1231389002846 ABC transporter signature motif; other site 1231389002847 Walker B; other site 1231389002848 D-loop; other site 1231389002849 H-loop/switch region; other site 1231389002850 DNA topoisomerase I; Validated; Region: PRK05582 1231389002851 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 1231389002852 active site 1231389002853 interdomain interaction site; other site 1231389002854 putative metal-binding site [ion binding]; other site 1231389002855 nucleotide binding site [chemical binding]; other site 1231389002856 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 1231389002857 domain I; other site 1231389002858 DNA binding groove [nucleotide binding] 1231389002859 phosphate binding site [ion binding]; other site 1231389002860 domain II; other site 1231389002861 domain III; other site 1231389002862 nucleotide binding site [chemical binding]; other site 1231389002863 catalytic site [active] 1231389002864 domain IV; other site 1231389002865 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1231389002866 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1231389002867 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1231389002868 DNA protecting protein DprA; Region: dprA; TIGR00732 1231389002869 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 1231389002870 putative ligand binding residues [chemical binding]; other site 1231389002871 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1231389002872 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1231389002873 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1231389002874 Walker A/P-loop; other site 1231389002875 ATP binding site [chemical binding]; other site 1231389002876 Q-loop/lid; other site 1231389002877 ABC transporter signature motif; other site 1231389002878 Walker B; other site 1231389002879 D-loop; other site 1231389002880 H-loop/switch region; other site 1231389002881 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 1231389002882 ABC-ATPase subunit interface; other site 1231389002883 dimer interface [polypeptide binding]; other site 1231389002884 putative PBP binding regions; other site 1231389002885 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1231389002886 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 1231389002887 ABC-ATPase subunit interface; other site 1231389002888 dimer interface [polypeptide binding]; other site 1231389002889 putative PBP binding regions; other site 1231389002890 maltose O-acetyltransferase; Provisional; Region: PRK10092 1231389002891 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1231389002892 active site 1231389002893 substrate binding site [chemical binding]; other site 1231389002894 trimer interface [polypeptide binding]; other site 1231389002895 CoA binding site [chemical binding]; other site 1231389002896 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1231389002897 RNA/DNA hybrid binding site [nucleotide binding]; other site 1231389002898 active site 1231389002899 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1231389002900 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1231389002901 GTP/Mg2+ binding site [chemical binding]; other site 1231389002902 G4 box; other site 1231389002903 G5 box; other site 1231389002904 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1231389002905 G1 box; other site 1231389002906 G1 box; other site 1231389002907 GTP/Mg2+ binding site [chemical binding]; other site 1231389002908 Switch I region; other site 1231389002909 G2 box; other site 1231389002910 G2 box; other site 1231389002911 G3 box; other site 1231389002912 G3 box; other site 1231389002913 Switch II region; other site 1231389002914 Switch II region; other site 1231389002915 G5 box; other site 1231389002916 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1231389002917 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1231389002918 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1231389002919 Carbon starvation protein CstA; Region: CstA; pfam02554 1231389002920 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1231389002921 two-component response regulator; Provisional; Region: PRK14084 1231389002922 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 1231389002923 active site 1231389002924 phosphorylation site [posttranslational modification] 1231389002925 intermolecular recognition site; other site 1231389002926 dimerization interface [polypeptide binding]; other site 1231389002927 LytTr DNA-binding domain; Region: LytTR; pfam04397 1231389002928 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1231389002929 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1231389002930 GAF domain; Region: GAF_3; pfam13492 1231389002931 Histidine kinase; Region: His_kinase; pfam06580 1231389002932 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 1231389002933 Mg2+ binding site [ion binding]; other site 1231389002934 G-X-G motif; other site 1231389002935 Proteins of 100 residues with WXG; Region: WXG100; cl02005 1231389002936 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 1231389002937 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1231389002938 nucleophilic elbow; other site 1231389002939 catalytic triad; other site 1231389002940 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1231389002941 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1231389002942 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1231389002943 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1231389002944 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1231389002945 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1231389002946 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 1231389002947 IMP binding site; other site 1231389002948 dimer interface [polypeptide binding]; other site 1231389002949 interdomain contacts; other site 1231389002950 partial ornithine binding site; other site 1231389002951 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1231389002952 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1231389002953 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1231389002954 catalytic site [active] 1231389002955 subunit interface [polypeptide binding]; other site 1231389002956 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1231389002957 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1231389002958 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1231389002959 dihydroorotase; Validated; Region: pyrC; PRK09357 1231389002960 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 1231389002961 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 1231389002962 active site 1231389002963 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1231389002964 active site 1231389002965 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 1231389002966 active site 1231389002967 dimer interface [polypeptide binding]; other site 1231389002968 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1231389002969 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 1231389002970 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1231389002971 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1231389002972 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1231389002973 ABC transporter; Region: ABC_tran_2; pfam12848 1231389002974 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1231389002975 ATP cone domain; Region: ATP-cone; pfam03477 1231389002976 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1231389002977 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1231389002978 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1231389002979 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1231389002980 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1231389002981 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 1231389002982 putative active site [active] 1231389002983 catalytic site [active] 1231389002984 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 1231389002985 putative active site [active] 1231389002986 catalytic site [active] 1231389002987 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1231389002988 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 1231389002989 Potassium binding sites [ion binding]; other site 1231389002990 Cesium cation binding sites [ion binding]; other site 1231389002991 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1231389002992 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1231389002993 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1231389002994 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 1231389002995 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 1231389002996 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 1231389002997 ADP-ribose binding site [chemical binding]; other site 1231389002998 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 1231389002999 lipoyl attachment site [posttranslational modification]; other site 1231389003000 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1231389003001 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1231389003002 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 1231389003003 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1231389003004 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 1231389003005 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 1231389003006 Flavoprotein; Region: Flavoprotein; pfam02441 1231389003007 Predicted membrane protein [Function unknown]; Region: COG4684 1231389003008 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1231389003009 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 1231389003010 active site 1231389003011 substrate binding site [chemical binding]; other site 1231389003012 metal binding site [ion binding]; metal-binding site 1231389003013 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1231389003014 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1231389003015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389003016 Walker A/P-loop; other site 1231389003017 ATP binding site [chemical binding]; other site 1231389003018 Q-loop/lid; other site 1231389003019 ABC transporter signature motif; other site 1231389003020 Walker B; other site 1231389003021 D-loop; other site 1231389003022 H-loop/switch region; other site 1231389003023 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 1231389003024 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1231389003025 catalytic residue [active] 1231389003026 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 1231389003027 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1231389003028 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 1231389003029 dimer interface [polypeptide binding]; other site 1231389003030 active site 1231389003031 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1231389003032 folate binding site [chemical binding]; other site 1231389003033 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1231389003034 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1231389003035 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 1231389003036 S-adenosylmethionine binding site [chemical binding]; other site 1231389003037 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1231389003038 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1231389003039 RF-1 domain; Region: RF-1; pfam00472 1231389003040 thymidine kinase; Provisional; Region: PRK04296 1231389003041 4-oxalocrotonate tautomerase; Provisional; Region: PRK02289 1231389003042 active site 1 [active] 1231389003043 dimer interface [polypeptide binding]; other site 1231389003044 hexamer interface [polypeptide binding]; other site 1231389003045 active site 2 [active] 1231389003046 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1231389003047 ApbE family; Region: ApbE; pfam02424 1231389003048 Predicted flavoprotein [General function prediction only]; Region: COG0431 1231389003049 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1231389003050 Predicted flavoprotein [General function prediction only]; Region: COG0431 1231389003051 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1231389003052 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 1231389003053 xanthine permease; Region: pbuX; TIGR03173 1231389003054 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1231389003055 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1231389003056 active site 1231389003057 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1231389003058 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 1231389003059 active site 1231389003060 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 1231389003061 putative substrate translocation pore; other site 1231389003062 K+ potassium transporter; Region: K_trans; cl15781 1231389003063 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1231389003064 malonic semialdehyde reductase; Provisional; Region: PRK10538 1231389003065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1231389003066 NAD(P) binding site [chemical binding]; other site 1231389003067 active site 1231389003068 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1231389003069 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 1231389003070 RNA binding surface [nucleotide binding]; other site 1231389003071 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1231389003072 active site 1231389003073 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 1231389003074 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1231389003075 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1231389003076 synthetase active site [active] 1231389003077 NTP binding site [chemical binding]; other site 1231389003078 metal binding site [ion binding]; metal-binding site 1231389003079 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 1231389003080 putative active site [active] 1231389003081 putative metal binding residues [ion binding]; other site 1231389003082 signature motif; other site 1231389003083 putative triphosphate binding site [ion binding]; other site 1231389003084 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 1231389003085 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1231389003086 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1231389003087 active site 1231389003088 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1231389003089 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1231389003090 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1231389003091 catalytic residue [active] 1231389003092 Putative amino acid metabolism; Region: DUF1831; pfam08866 1231389003093 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1231389003094 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1231389003095 CoA binding domain; Region: CoA_binding; pfam02629 1231389003096 hypothetical protein; Reviewed; Region: PRK00024 1231389003097 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1231389003098 MPN+ (JAMM) motif; other site 1231389003099 Zinc-binding site [ion binding]; other site 1231389003100 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1231389003101 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1231389003102 Predicted transcriptional regulators [Transcription]; Region: COG1695 1231389003103 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1231389003104 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 1231389003105 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, 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...; Region: NnaC_like; cd01841 1231389003106 active site 1231389003107 catalytic triad [active] 1231389003108 oxyanion hole [active] 1231389003109 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1231389003110 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 1231389003111 active site 1231389003112 motif I; other site 1231389003113 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1231389003114 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1231389003115 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1231389003116 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1231389003117 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1231389003118 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 1231389003119 Cl- selectivity filter; other site 1231389003120 Cl- binding residues [ion binding]; other site 1231389003121 pore gating glutamate residue; other site 1231389003122 dimer interface [polypeptide binding]; other site 1231389003123 H+/Cl- coupling transport residue; other site 1231389003124 TrkA-C domain; Region: TrkA_C; pfam02080 1231389003125 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1231389003126 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1231389003127 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1231389003128 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 1231389003129 dimer interface [polypeptide binding]; other site 1231389003130 conserved gate region; other site 1231389003131 putative PBP binding loops; other site 1231389003132 ABC-ATPase subunit interface; other site 1231389003133 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 1231389003134 dimer interface [polypeptide binding]; other site 1231389003135 conserved gate region; other site 1231389003136 putative PBP binding loops; other site 1231389003137 ABC-ATPase subunit interface; other site 1231389003138 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1231389003139 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1231389003140 Walker A/P-loop; other site 1231389003141 ATP binding site [chemical binding]; other site 1231389003142 Q-loop/lid; other site 1231389003143 ABC transporter signature motif; other site 1231389003144 Walker B; other site 1231389003145 D-loop; other site 1231389003146 H-loop/switch region; other site 1231389003147 TOBE domain; Region: TOBE_2; pfam08402 1231389003148 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1231389003149 FAD binding domain; Region: FAD_binding_4; pfam01565 1231389003150 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1231389003151 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 1231389003152 catalytic center binding site [active] 1231389003153 ATP binding site [chemical binding]; other site 1231389003154 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 1231389003155 homooctamer interface [polypeptide binding]; other site 1231389003156 active site 1231389003157 dihydropteroate synthase; Region: DHPS; TIGR01496 1231389003158 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 1231389003159 substrate binding pocket [chemical binding]; other site 1231389003160 dimer interface [polypeptide binding]; other site 1231389003161 inhibitor binding site; inhibition site 1231389003162 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 1231389003163 homodecamer interface [polypeptide binding]; other site 1231389003164 GTP cyclohydrolase I; Provisional; Region: PLN03044 1231389003165 active site 1231389003166 putative catalytic site residues [active] 1231389003167 zinc binding site [ion binding]; other site 1231389003168 GTP-CH-I/GFRP interaction surface; other site 1231389003169 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1231389003170 SNF2 Helicase protein; Region: DUF3670; pfam12419 1231389003171 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1231389003172 homoserine kinase; Provisional; Region: PRK01212 1231389003173 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1231389003174 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1231389003175 homoserine dehydrogenase; Provisional; Region: PRK06349 1231389003176 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1231389003177 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1231389003178 BCCT family transporter; Region: BCCT; pfam02028 1231389003179 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1231389003180 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1231389003181 NAD(P) binding site [chemical binding]; other site 1231389003182 catalytic residues [active] 1231389003183 Predicted membrane protein [Function unknown]; Region: COG2855 1231389003184 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 1231389003185 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 1231389003186 dimer interface [polypeptide binding]; other site 1231389003187 catalytic triad [active] 1231389003188 peroxidatic and resolving cysteines [active] 1231389003189 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1231389003190 A new structural DNA glycosylase; Region: AlkD_like; cl11434 1231389003191 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1231389003192 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 1231389003193 active site 1231389003194 motif I; other site 1231389003195 motif II; other site 1231389003196 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1231389003197 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1231389003198 DNA-binding site [nucleotide binding]; DNA binding site 1231389003199 TrkA-C domain; Region: TrkA_C; pfam02080 1231389003200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1231389003201 CsbD-like; Region: CsbD; pfam05532 1231389003202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1231389003203 Small integral membrane protein [Function unknown]; Region: COG5547 1231389003204 Predicted membrane protein [Function unknown]; Region: COG2261 1231389003205 Predicted membrane protein [Function unknown]; Region: COG2261 1231389003206 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1231389003207 Part of AAA domain; Region: AAA_19; pfam13245 1231389003208 AAA domain; Region: AAA_12; pfam13087 1231389003209 Family description; Region: UvrD_C_2; pfam13538 1231389003210 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 1231389003211 CoenzymeA binding site [chemical binding]; other site 1231389003212 subunit interaction site [polypeptide binding]; other site 1231389003213 PHB binding site; other site 1231389003214 uracil transporter; Provisional; Region: PRK10720 1231389003215 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1231389003216 amino acid carrier protein; Region: agcS; TIGR00835 1231389003217 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1231389003218 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1231389003219 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1231389003220 LrgB-like family; Region: LrgB; pfam04172 1231389003221 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 1231389003222 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1231389003223 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 1231389003224 RNA binding site [nucleotide binding]; other site 1231389003225 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 1231389003226 RNA binding site [nucleotide binding]; other site 1231389003227 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 1231389003228 RNA binding site [nucleotide binding]; other site 1231389003229 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 1231389003230 RNA binding site [nucleotide binding]; other site 1231389003231 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 1231389003232 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1231389003233 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1231389003234 homodimer interface [polypeptide binding]; other site 1231389003235 substrate-cofactor binding pocket; other site 1231389003236 catalytic residue [active] 1231389003237 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 1231389003238 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 1231389003239 CAP-like domain; other site 1231389003240 active site 1231389003241 primary dimer interface [polypeptide binding]; other site 1231389003242 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1231389003243 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 1231389003244 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 1231389003245 Mg2+ binding site [ion binding]; other site 1231389003246 G-X-G motif; other site 1231389003247 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 1231389003248 anchoring element; other site 1231389003249 dimer interface [polypeptide binding]; other site 1231389003250 ATP binding site [chemical binding]; other site 1231389003251 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 1231389003252 active site 1231389003253 putative metal-binding site [ion binding]; other site 1231389003254 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1231389003255 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1231389003256 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1231389003257 ligand binding site [chemical binding]; other site 1231389003258 active site 1231389003259 UGI interface [polypeptide binding]; other site 1231389003260 catalytic site [active] 1231389003261 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1231389003262 ligand binding site; other site 1231389003263 tetramer interface; other site 1231389003264 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1231389003265 active site 1231389003266 catalytic triad [active] 1231389003267 oxyanion hole [active] 1231389003268 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1231389003269 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1231389003270 putative trimer interface [polypeptide binding]; other site 1231389003271 putative CoA binding site [chemical binding]; other site 1231389003272 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1231389003273 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 1231389003274 active site 1231389003275 homodimer interface [polypeptide binding]; other site 1231389003276 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1231389003277 NeuB family; Region: NeuB; pfam03102 1231389003278 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1231389003279 NeuB binding interface [polypeptide binding]; other site 1231389003280 putative substrate binding site [chemical binding]; other site 1231389003281 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1231389003282 Polysaccharide biosynthesis protein; Region: Polysacc_synt; pfam01943 1231389003283 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1231389003284 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1231389003285 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1231389003286 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 1231389003287 active site 1231389003288 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1231389003289 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 1231389003290 active site 1231389003291 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; pfam04101 1231389003292 Oligosaccharide biosynthesis protein Alg14 like; Region: Alg14; pfam08660 1231389003293 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1231389003294 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1231389003295 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1231389003296 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 1231389003297 Chain length determinant protein; Region: Wzz; cl15801 1231389003298 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1231389003299 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1231389003300 DNA polymerase processivity factor; Region: DNA_PPF; pfam02916 1231389003301 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 1231389003302 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1231389003303 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1231389003304 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 1231389003305 dimerization interface [polypeptide binding]; other site 1231389003306 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl09873 1231389003307 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1231389003308 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1231389003309 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1231389003310 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 1231389003311 ArsC family; Region: ArsC; pfam03960 1231389003312 catalytic residues [active] 1231389003313 phosphopentomutase; Provisional; Region: PRK05362 1231389003314 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1231389003315 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 1231389003316 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1231389003317 active site 1231389003318 dimer interface [polypeptide binding]; other site 1231389003319 Nuclear pore assembly and biogenesis; Region: Apq12; pfam12716 1231389003320 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 1231389003321 active site 1231389003322 S-formylglutathione hydrolase; Region: PLN02442 1231389003323 Predicted esterase [General function prediction only]; Region: COG0627 1231389003324 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1231389003325 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1231389003326 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1231389003327 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1231389003328 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389003329 Walker A/P-loop; other site 1231389003330 ATP binding site [chemical binding]; other site 1231389003331 Q-loop/lid; other site 1231389003332 ABC transporter signature motif; other site 1231389003333 Walker B; other site 1231389003334 D-loop; other site 1231389003335 H-loop/switch region; other site 1231389003336 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 1231389003337 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1231389003338 TM-ABC transporter signature motif; other site 1231389003339 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 1231389003340 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1231389003341 zinc binding site [ion binding]; other site 1231389003342 putative ligand binding site [chemical binding]; other site 1231389003343 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1231389003344 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1231389003345 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 1231389003346 acetolactate synthase; Reviewed; Region: PRK08617 1231389003347 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1231389003348 PYR/PP interface [polypeptide binding]; other site 1231389003349 dimer interface [polypeptide binding]; other site 1231389003350 TPP binding site [chemical binding]; other site 1231389003351 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1231389003352 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1231389003353 TPP-binding site [chemical binding]; other site 1231389003354 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 1231389003355 binding surface 1231389003356 TPR motif; other site 1231389003357 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 1231389003358 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1231389003359 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1231389003360 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_29; cd04688 1231389003361 nudix motif; other site 1231389003362 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 1231389003363 putative active site [active] 1231389003364 nucleotide binding site [chemical binding]; other site 1231389003365 nudix motif; other site 1231389003366 putative metal binding site [ion binding]; other site 1231389003367 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 1231389003368 substrate binding site [chemical binding]; other site 1231389003369 catalytic residues [active] 1231389003370 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1231389003371 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1231389003372 NAD binding site [chemical binding]; other site 1231389003373 substrate binding site [chemical binding]; other site 1231389003374 homodimer interface [polypeptide binding]; other site 1231389003375 active site 1231389003376 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1231389003377 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1231389003378 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1231389003379 substrate binding site; other site 1231389003380 tetramer interface; other site 1231389003381 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1231389003382 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1231389003383 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1231389003384 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1231389003385 Family of unknown function (DUF633); Region: DUF633; pfam04816 1231389003386 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1231389003387 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1231389003388 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1231389003389 active site 1231389003390 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1231389003391 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1231389003392 Clostridial hydrophobic W; Region: ChW; pfam07538 1231389003393 Clostridial hydrophobic W; Region: ChW; pfam07538 1231389003394 Clostridial hydrophobic W; Region: ChW; pfam07538 1231389003395 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1231389003396 Clostridial hydrophobic W; Region: ChW; cl02763 1231389003397 Clostridial hydrophobic W; Region: ChW; cl02763 1231389003398 Clostridial hydrophobic W; Region: ChW; pfam07538 1231389003399 Clostridial hydrophobic W; Region: ChW; pfam07538 1231389003400 Clostridial hydrophobic W; Region: ChW; pfam07538 1231389003401 Clostridial hydrophobic W; Region: ChW; pfam07538 1231389003402 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1231389003403 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 1231389003404 putative active site [active] 1231389003405 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1231389003406 DHH family; Region: DHH; pfam01368 1231389003407 DHHA1 domain; Region: DHHA1; pfam02272 1231389003408 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; pfam10141 1231389003409 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1231389003410 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1231389003411 NAD(P) binding site [chemical binding]; other site 1231389003412 active site 1231389003413 ribonuclease Z; Region: RNase_Z; TIGR02651 1231389003414 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1231389003415 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1231389003416 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1231389003417 HflX GTPase family; Region: HflX; cd01878 1231389003418 G1 box; other site 1231389003419 GTP/Mg2+ binding site [chemical binding]; other site 1231389003420 Switch I region; other site 1231389003421 G2 box; other site 1231389003422 G3 box; other site 1231389003423 Switch II region; other site 1231389003424 G4 box; other site 1231389003425 G5 box; other site 1231389003426 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1231389003427 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1231389003428 hypothetical protein; Provisional; Region: PRK07329 1231389003429 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1231389003430 active site 1231389003431 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1231389003432 putative uracil binding site [chemical binding]; other site 1231389003433 putative active site [active] 1231389003434 dipeptidase PepV; Reviewed; Region: PRK07318 1231389003435 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1231389003436 active site 1231389003437 metal binding site [ion binding]; metal-binding site 1231389003438 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 1231389003439 dimer interface [polypeptide binding]; other site 1231389003440 FMN binding site [chemical binding]; other site 1231389003441 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 1231389003442 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 1231389003443 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1231389003444 putative active site [active] 1231389003445 catalytic site [active] 1231389003446 putative metal binding site [ion binding]; other site 1231389003447 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1231389003448 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1231389003449 GIY-YIG motif/motif A; other site 1231389003450 active site 1231389003451 catalytic site [active] 1231389003452 putative DNA binding site [nucleotide binding]; other site 1231389003453 metal binding site [ion binding]; metal-binding site 1231389003454 UvrB/uvrC motif; Region: UVR; pfam02151 1231389003455 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1231389003456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1231389003457 multidrug efflux protein; Reviewed; Region: PRK01766 1231389003458 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1231389003459 cation binding site [ion binding]; other site 1231389003460 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1231389003461 dimer interface [polypeptide binding]; other site 1231389003462 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 1231389003463 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 1231389003464 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 1231389003465 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 1231389003466 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389003467 Q-loop/lid; other site 1231389003468 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 1231389003469 core dimer interface [polypeptide binding]; other site 1231389003470 L10 interface [polypeptide binding]; other site 1231389003471 L11 interface [polypeptide binding]; other site 1231389003472 putative EF-Tu interaction site [polypeptide binding]; other site 1231389003473 putative EF-G interaction site [polypeptide binding]; other site 1231389003474 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 1231389003475 23S rRNA interface [nucleotide binding]; other site 1231389003476 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1231389003477 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 1231389003478 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1231389003479 Walker A motif; other site 1231389003480 ATP binding site [chemical binding]; other site 1231389003481 Walker B motif; other site 1231389003482 arginine finger; other site 1231389003483 UvrB/uvrC motif; Region: UVR; pfam02151 1231389003484 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 1231389003485 Walker A motif; other site 1231389003486 ATP binding site [chemical binding]; other site 1231389003487 Walker B motif; other site 1231389003488 arginine finger; other site 1231389003489 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1231389003490 S-methylmethionine transporter; Provisional; Region: PRK11387 1231389003491 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 1231389003492 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1231389003493 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1231389003494 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1231389003495 G1 box; other site 1231389003496 GTP/Mg2+ binding site [chemical binding]; other site 1231389003497 Switch I region; other site 1231389003498 G2 box; other site 1231389003499 G3 box; other site 1231389003500 Switch II region; other site 1231389003501 G4 box; other site 1231389003502 G5 box; other site 1231389003503 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1231389003504 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1231389003505 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 1231389003506 Walker A motif; other site 1231389003507 ATP binding site [chemical binding]; other site 1231389003508 Walker B motif; other site 1231389003509 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1231389003510 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1231389003511 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 1231389003512 folate binding site [chemical binding]; other site 1231389003513 NADP+ binding site [chemical binding]; other site 1231389003514 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1231389003515 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 1231389003516 dimerization interface [polypeptide binding]; other site 1231389003517 active site 1231389003518 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1231389003519 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 1231389003520 dimer interface [polypeptide binding]; other site 1231389003521 active site 1231389003522 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1231389003523 homodimer interface [polypeptide binding]; other site 1231389003524 catalytic residues [active] 1231389003525 NAD binding site [chemical binding]; other site 1231389003526 substrate binding pocket [chemical binding]; other site 1231389003527 flexible flap; other site 1231389003528 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1231389003529 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1231389003530 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1231389003531 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1231389003532 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1231389003533 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1231389003534 putative substrate binding pocket (H-site) [chemical binding]; other site 1231389003535 N-terminal domain interface [polypeptide binding]; other site 1231389003536 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1231389003537 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 1231389003538 homotetramer interface [polypeptide binding]; other site 1231389003539 FMN binding site [chemical binding]; other site 1231389003540 homodimer contacts [polypeptide binding]; other site 1231389003541 putative active site [active] 1231389003542 putative substrate binding site [chemical binding]; other site 1231389003543 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 1231389003544 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1231389003545 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1231389003546 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 1231389003547 diphosphomevalonate decarboxylase; Region: PLN02407 1231389003548 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 1231389003549 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1231389003550 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1231389003551 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 1231389003552 dimer interface [polypeptide binding]; other site 1231389003553 phosphorylation site [posttranslational modification] 1231389003554 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 1231389003555 ATP binding site [chemical binding]; other site 1231389003556 Mg2+ binding site [ion binding]; other site 1231389003557 G-X-G motif; other site 1231389003558 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1231389003559 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 1231389003560 active site 1231389003561 phosphorylation site [posttranslational modification] 1231389003562 intermolecular recognition site; other site 1231389003563 dimerization interface [polypeptide binding]; other site 1231389003564 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 1231389003565 DNA binding site [nucleotide binding] 1231389003566 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1231389003567 synthetase active site [active] 1231389003568 NTP binding site [chemical binding]; other site 1231389003569 metal binding site [ion binding]; metal-binding site 1231389003570 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1231389003571 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389003572 ABC transporter signature motif; other site 1231389003573 Walker B; other site 1231389003574 D-loop; other site 1231389003575 H-loop/switch region; other site 1231389003576 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1231389003577 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1231389003578 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1231389003579 Walker A/P-loop; other site 1231389003580 ATP binding site [chemical binding]; other site 1231389003581 Q-loop/lid; other site 1231389003582 ABC transporter signature motif; other site 1231389003583 Walker B; other site 1231389003584 D-loop; other site 1231389003585 H-loop/switch region; other site 1231389003586 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1231389003587 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1231389003588 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389003589 Walker A/P-loop; other site 1231389003590 ATP binding site [chemical binding]; other site 1231389003591 Q-loop/lid; other site 1231389003592 ABC transporter signature motif; other site 1231389003593 Walker B; other site 1231389003594 D-loop; other site 1231389003595 H-loop/switch region; other site 1231389003596 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1231389003597 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1231389003598 Coenzyme A binding pocket [chemical binding]; other site 1231389003599 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1231389003600 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389003601 Walker A/P-loop; other site 1231389003602 ATP binding site [chemical binding]; other site 1231389003603 Q-loop/lid; other site 1231389003604 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1231389003605 ABC transporter; Region: ABC_tran_2; pfam12848 1231389003606 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1231389003607 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1231389003608 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1231389003609 active site 1231389003610 NTP binding site [chemical binding]; other site 1231389003611 metal binding triad [ion binding]; metal-binding site 1231389003612 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1231389003613 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1231389003614 EDD domain protein, DegV family; Region: DegV; TIGR00762 1231389003615 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1231389003616 Protein of unknown function (DUF1149); Region: DUF1149; pfam06619 1231389003617 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 1231389003618 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1231389003619 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 1231389003620 active site 1231389003621 phosphorylation site [posttranslational modification] 1231389003622 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 1231389003623 active site 1231389003624 P-loop; other site 1231389003625 phosphorylation site [posttranslational modification] 1231389003626 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1231389003627 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1231389003628 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 1231389003629 putative substrate binding site [chemical binding]; other site 1231389003630 putative ATP binding site [chemical binding]; other site 1231389003631 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1231389003632 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1231389003633 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1231389003634 FemAB family; Region: FemAB; pfam02388 1231389003635 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 1231389003636 Bacterial SH3 domain; Region: SH3_5; pfam08460 1231389003637 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1231389003638 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1231389003639 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1231389003640 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 1231389003641 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 1231389003642 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1231389003643 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1231389003644 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1231389003645 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1231389003646 RimM N-terminal domain; Region: RimM; pfam01782 1231389003647 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 1231389003648 Mga helix-turn-helix domain; Region: Mga; pfam05043 1231389003649 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 1231389003650 KH domain; Region: KH_4; pfam13083 1231389003651 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1231389003652 G-X-X-G motif; other site 1231389003653 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1231389003654 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1231389003655 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1231389003656 FtsX-like permease family; Region: FtsX; pfam02687 1231389003657 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1231389003658 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1231389003659 Walker A/P-loop; other site 1231389003660 ATP binding site [chemical binding]; other site 1231389003661 Q-loop/lid; other site 1231389003662 ABC transporter signature motif; other site 1231389003663 Walker B; other site 1231389003664 D-loop; other site 1231389003665 H-loop/switch region; other site 1231389003666 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1231389003667 HlyD family secretion protein; Region: HlyD_3; pfam13437 1231389003668 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1231389003669 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1231389003670 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 1231389003671 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1231389003672 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1231389003673 catalytic site [active] 1231389003674 subunit interface [polypeptide binding]; other site 1231389003675 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1231389003676 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1231389003677 active site 1231389003678 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1231389003679 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 1231389003680 RNA binding surface [nucleotide binding]; other site 1231389003681 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1231389003682 active site 1231389003683 lipoprotein signal peptidase; Provisional; Region: PRK14797 1231389003684 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1231389003685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1231389003686 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 1231389003687 dimerization interface [polypeptide binding]; other site 1231389003688 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1231389003689 Protein of unknown function (DUF464); Region: DUF464; pfam04327 1231389003690 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1231389003691 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1231389003692 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1231389003693 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 1231389003694 Ligand Binding Site [chemical binding]; other site 1231389003695 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1231389003696 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1231389003697 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1231389003698 catalytic residue [active] 1231389003699 glutathione reductase; Validated; Region: PRK06116 1231389003700 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1231389003701 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1231389003702 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1231389003703 hypothetical protein; Provisional; Region: PRK13676 1231389003704 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1231389003705 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1231389003706 Tetramer interface [polypeptide binding]; other site 1231389003707 active site 1231389003708 FMN-binding site [chemical binding]; other site 1231389003709 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1231389003710 active site 1231389003711 dimer interface [polypeptide binding]; other site 1231389003712 metal binding site [ion binding]; metal-binding site 1231389003713 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1231389003714 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1231389003715 active site 1231389003716 catalytic residue [active] 1231389003717 dimer interface [polypeptide binding]; other site 1231389003718 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1231389003719 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1231389003720 putative RNA binding site [nucleotide binding]; other site 1231389003721 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1231389003722 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1231389003723 Sulfatase; Region: Sulfatase; pfam00884 1231389003724 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1231389003725 23S rRNA binding site [nucleotide binding]; other site 1231389003726 L21 binding site [polypeptide binding]; other site 1231389003727 L13 binding site [polypeptide binding]; other site 1231389003728 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1231389003729 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1231389003730 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1231389003731 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1231389003732 cytidylate kinase; Provisional; Region: cmk; PRK00023 1231389003733 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 1231389003734 CMP-binding site; other site 1231389003735 The sites determining sugar specificity; other site 1231389003736 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1231389003737 peptidase T; Region: peptidase-T; TIGR01882 1231389003738 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1231389003739 metal binding site [ion binding]; metal-binding site 1231389003740 dimer interface [polypeptide binding]; other site 1231389003741 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1231389003742 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1231389003743 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 1231389003744 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1231389003745 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1231389003746 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1231389003747 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1231389003748 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1231389003749 Walker A/P-loop; other site 1231389003750 ATP binding site [chemical binding]; other site 1231389003751 Q-loop/lid; other site 1231389003752 ABC transporter signature motif; other site 1231389003753 Walker B; other site 1231389003754 D-loop; other site 1231389003755 H-loop/switch region; other site 1231389003756 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1231389003757 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1231389003758 intersubunit interface [polypeptide binding]; other site 1231389003759 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1231389003760 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 1231389003761 dimer interface [polypeptide binding]; other site 1231389003762 putative PBP binding regions; other site 1231389003763 ABC-ATPase subunit interface; other site 1231389003764 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1231389003765 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1231389003766 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 1231389003767 ABC-ATPase subunit interface; other site 1231389003768 dimer interface [polypeptide binding]; other site 1231389003769 putative PBP binding regions; other site 1231389003770 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1231389003771 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1231389003772 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1231389003773 DHH family; Region: DHH; pfam01368 1231389003774 DHHA2 domain; Region: DHHA2; pfam02833 1231389003775 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 1231389003776 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 1231389003777 FeS/SAM binding site; other site 1231389003778 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1231389003779 Domain of unknown function DUF21; Region: DUF21; pfam01595 1231389003780 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 1231389003781 Transporter associated domain; Region: CorC_HlyC; smart01091 1231389003782 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 1231389003783 S-adenosylmethionine binding site [chemical binding]; other site 1231389003784 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1231389003785 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 1231389003786 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1231389003787 active site 1231389003788 Predicted membrane protein [Function unknown]; Region: COG3601 1231389003789 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1231389003790 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cd00004 1231389003791 active site 1231389003792 catalytic site [active] 1231389003793 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1231389003794 active site 1231389003795 catalytic site [active] 1231389003796 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1231389003797 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1231389003798 Listeria/Bacterioides repeat; Region: List_Bact_rpt; TIGR02543 1231389003799 Cna protein B-type domain; Region: Cna_B; pfam05738 1231389003800 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1231389003801 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 1231389003802 Catalytic site [active] 1231389003803 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1231389003804 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 1231389003805 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 1231389003806 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 1231389003807 active site 1231389003808 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1231389003809 Polysaccharide biosynthesis protein; Region: Polysacc_synt; pfam01943 1231389003810 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 1231389003811 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1231389003812 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 1231389003813 active site 1231389003814 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1231389003815 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1231389003816 Probable Catalytic site; other site 1231389003817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1231389003818 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1231389003819 NAD(P) binding site [chemical binding]; other site 1231389003820 active site 1231389003821 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1231389003822 substrate binding site; other site 1231389003823 dimer interface; other site 1231389003824 LicD family; Region: LicD; cl01378 1231389003825 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 1231389003826 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1231389003827 Ligand binding site; other site 1231389003828 Putative Catalytic site; other site 1231389003829 DXD motif; other site 1231389003830 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1231389003831 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1231389003832 Probable Catalytic site; other site 1231389003833 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_6; cd04955 1231389003834 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1231389003835 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1231389003836 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1231389003837 NADP binding site [chemical binding]; other site 1231389003838 active site 1231389003839 putative substrate binding site [chemical binding]; other site 1231389003840 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1231389003841 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1231389003842 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1231389003843 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1231389003844 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1231389003845 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1231389003846 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 1231389003847 DNA binding residues [nucleotide binding] 1231389003848 DNA primase; Validated; Region: dnaG; PRK05667 1231389003849 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1231389003850 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1231389003851 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 1231389003852 active site 1231389003853 metal binding site [ion binding]; metal-binding site 1231389003854 interdomain interaction site; other site 1231389003855 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1231389003856 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1231389003857 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1231389003858 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1231389003859 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1231389003860 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 1231389003861 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1231389003862 substrate binding pocket [chemical binding]; other site 1231389003863 membrane-bound complex binding site; other site 1231389003864 hinge residues; other site 1231389003865 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1231389003866 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1231389003867 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1231389003868 active site residue [active] 1231389003869 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 1231389003870 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1231389003871 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 1231389003872 putative substrate translocation pore; other site 1231389003873 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 1231389003874 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1231389003875 4-alpha-glucanotransferase; Provisional; Region: PRK14508 1231389003876 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1231389003877 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1231389003878 DNA binding site [nucleotide binding] 1231389003879 domain linker motif; other site 1231389003880 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 1231389003881 putative dimerization interface [polypeptide binding]; other site 1231389003882 putative ligand binding site [chemical binding]; other site 1231389003883 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1231389003884 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1231389003885 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 1231389003886 dimer interface [polypeptide binding]; other site 1231389003887 conserved gate region; other site 1231389003888 putative PBP binding loops; other site 1231389003889 ABC-ATPase subunit interface; other site 1231389003890 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1231389003891 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 1231389003892 dimer interface [polypeptide binding]; other site 1231389003893 conserved gate region; other site 1231389003894 putative PBP binding loops; other site 1231389003895 ABC-ATPase subunit interface; other site 1231389003896 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 1231389003897 putative active site [active] 1231389003898 nucleotide binding site [chemical binding]; other site 1231389003899 nudix motif; other site 1231389003900 putative metal binding site [ion binding]; other site 1231389003901 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 1231389003902 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 1231389003903 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 1231389003904 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 1231389003905 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 1231389003906 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 1231389003907 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 1231389003908 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 1231389003909 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1231389003910 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 1231389003911 Ligand binding site; other site 1231389003912 metal-binding site 1231389003913 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 1231389003914 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 1231389003915 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1231389003916 serine-rich repeat adhesion glycoprotein AST domain; Region: ser_adhes_Nterm; TIGR04224 1231389003917 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 1231389003918 excinuclease ABC subunit B; Provisional; Region: PRK05298 1231389003919 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 1231389003920 ATP binding site [chemical binding]; other site 1231389003921 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 1231389003922 nucleotide binding region [chemical binding]; other site 1231389003923 ATP-binding site [chemical binding]; other site 1231389003924 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1231389003925 CAAX protease self-immunity; Region: Abi; pfam02517 1231389003926 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1231389003927 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 1231389003928 substrate binding pocket [chemical binding]; other site 1231389003929 membrane-bound complex binding site; other site 1231389003930 hinge residues; other site 1231389003931 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1231389003932 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 1231389003933 substrate binding pocket [chemical binding]; other site 1231389003934 membrane-bound complex binding site; other site 1231389003935 hinge residues; other site 1231389003936 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 1231389003937 dimer interface [polypeptide binding]; other site 1231389003938 conserved gate region; other site 1231389003939 putative PBP binding loops; other site 1231389003940 ABC-ATPase subunit interface; other site 1231389003941 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1231389003942 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1231389003943 Walker A/P-loop; other site 1231389003944 ATP binding site [chemical binding]; other site 1231389003945 Q-loop/lid; other site 1231389003946 ABC transporter signature motif; other site 1231389003947 Walker B; other site 1231389003948 D-loop; other site 1231389003949 H-loop/switch region; other site 1231389003950 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1231389003951 GTP1/OBG; Region: GTP1_OBG; pfam01018 1231389003952 Obg GTPase; Region: Obg; cd01898 1231389003953 G1 box; other site 1231389003954 GTP/Mg2+ binding site [chemical binding]; other site 1231389003955 Switch I region; other site 1231389003956 G2 box; other site 1231389003957 G3 box; other site 1231389003958 Switch II region; other site 1231389003959 G4 box; other site 1231389003960 G5 box; other site 1231389003961 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1231389003962 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 1231389003963 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1231389003964 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1231389003965 amidase; Provisional; Region: PRK06529 1231389003966 Amidase; Region: Amidase; cl11426 1231389003967 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1231389003968 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 1231389003969 RNA binding surface [nucleotide binding]; other site 1231389003970 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1231389003971 active site 1231389003972 uracil binding [chemical binding]; other site 1231389003973 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 1231389003974 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1231389003975 active site 1231389003976 catalytic tetrad [active] 1231389003977 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1231389003978 dimer interface [polypeptide binding]; other site 1231389003979 FMN binding site [chemical binding]; other site 1231389003980 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1231389003981 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1231389003982 dimer interface [polypeptide binding]; other site 1231389003983 active site 1231389003984 metal binding site [ion binding]; metal-binding site 1231389003985 glutathione binding site [chemical binding]; other site 1231389003986 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1231389003987 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1231389003988 Ligand binding site; other site 1231389003989 Putative Catalytic site; other site 1231389003990 DXD motif; other site 1231389003991 Amino acid permease; Region: AA_permease_2; pfam13520 1231389003992 Spore germination protein; Region: Spore_permease; cl17796 1231389003993 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 1231389003994 SmpB-tmRNA interface; other site 1231389003995 ribonuclease R; Region: RNase_R; TIGR02063 1231389003996 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1231389003997 RNB domain; Region: RNB; pfam00773 1231389003998 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 1231389003999 RNA binding site [nucleotide binding]; other site 1231389004000 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 1231389004001 drug efflux system protein MdtG; Provisional; Region: PRK09874 1231389004002 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 1231389004003 putative substrate translocation pore; other site 1231389004004 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1231389004005 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1231389004006 Walker A/P-loop; other site 1231389004007 ATP binding site [chemical binding]; other site 1231389004008 Q-loop/lid; other site 1231389004009 ABC transporter signature motif; other site 1231389004010 Walker B; other site 1231389004011 D-loop; other site 1231389004012 H-loop/switch region; other site 1231389004013 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1231389004014 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 1231389004015 CoA-binding site [chemical binding]; other site 1231389004016 ATP-binding [chemical binding]; other site 1231389004017 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1231389004018 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1231389004019 DNA binding site [nucleotide binding] 1231389004020 catalytic residue [active] 1231389004021 H2TH interface [polypeptide binding]; other site 1231389004022 putative catalytic residues [active] 1231389004023 turnover-facilitating residue; other site 1231389004024 intercalation triad [nucleotide binding]; other site 1231389004025 8OG recognition residue [nucleotide binding]; other site 1231389004026 putative reading head residues; other site 1231389004027 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1231389004028 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1231389004029 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 1231389004030 sequence-specific DNA binding site [nucleotide binding]; other site 1231389004031 salt bridge; other site 1231389004032 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1231389004033 Transglutaminase/protease-like homologues; Region: TGc; smart00460 1231389004034 GTPase Era; Reviewed; Region: era; PRK00089 1231389004035 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1231389004036 G1 box; other site 1231389004037 GTP/Mg2+ binding site [chemical binding]; other site 1231389004038 Switch I region; other site 1231389004039 G2 box; other site 1231389004040 Switch II region; other site 1231389004041 G3 box; other site 1231389004042 G4 box; other site 1231389004043 G5 box; other site 1231389004044 KH domain; Region: KH_2; pfam07650 1231389004045 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1231389004046 metal-binding heat shock protein; Provisional; Region: PRK00016 1231389004047 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1231389004048 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 1231389004049 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 1231389004050 nudix motif; other site 1231389004051 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1231389004052 PhoH-like protein; Region: PhoH; pfam02562 1231389004053 myosin-cross-reactive antigen; Provisional; Region: PRK13977 1231389004054 hypothetical protein; Provisional; Region: PRK13672 1231389004055 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1231389004056 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1231389004057 S1 domain; Region: S1_2; pfam13509 1231389004058 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1231389004059 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1231389004060 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 1231389004061 hinge region; other site 1231389004062 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 1231389004063 putative nucleotide binding site [chemical binding]; other site 1231389004064 uridine monophosphate binding site [chemical binding]; other site 1231389004065 homohexameric interface [polypeptide binding]; other site 1231389004066 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1231389004067 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1231389004068 Walker A/P-loop; other site 1231389004069 ATP binding site [chemical binding]; other site 1231389004070 Q-loop/lid; other site 1231389004071 ABC transporter signature motif; other site 1231389004072 Walker B; other site 1231389004073 D-loop; other site 1231389004074 H-loop/switch region; other site 1231389004075 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1231389004076 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1231389004077 Walker A/P-loop; other site 1231389004078 ATP binding site [chemical binding]; other site 1231389004079 Q-loop/lid; other site 1231389004080 ABC transporter signature motif; other site 1231389004081 Walker B; other site 1231389004082 D-loop; other site 1231389004083 H-loop/switch region; other site 1231389004084 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1231389004085 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1231389004086 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 1231389004087 dimer interface [polypeptide binding]; other site 1231389004088 conserved gate region; other site 1231389004089 putative PBP binding loops; other site 1231389004090 ABC-ATPase subunit interface; other site 1231389004091 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1231389004092 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 1231389004093 dimer interface [polypeptide binding]; other site 1231389004094 conserved gate region; other site 1231389004095 putative PBP binding loops; other site 1231389004096 ABC-ATPase subunit interface; other site 1231389004097 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1231389004098 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 1231389004099 substrate binding site [chemical binding]; other site 1231389004100 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 1231389004101 mRNA/rRNA interface [nucleotide binding]; other site 1231389004102 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1231389004103 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 1231389004104 23S rRNA interface [nucleotide binding]; other site 1231389004105 L7/L12 interface [polypeptide binding]; other site 1231389004106 putative thiostrepton binding site; other site 1231389004107 L25 interface [polypeptide binding]; other site 1231389004108 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1231389004109 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 1231389004110 putative substrate translocation pore; other site 1231389004111 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1231389004112 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1231389004113 metal binding site [ion binding]; metal-binding site 1231389004114 dimer interface [polypeptide binding]; other site 1231389004115 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1231389004116 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 1231389004117 dimerization interface [polypeptide binding]; other site 1231389004118 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1231389004119 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1231389004120 substrate-cofactor binding pocket; other site 1231389004121 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1231389004122 Aminotransferase class IV; Region: Aminotran_4; pfam01063 1231389004123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1231389004124 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1231389004125 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1231389004126 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1231389004127 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 1231389004128 active site 1231389004129 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1231389004130 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 1231389004131 ABC-ATPase subunit interface; other site 1231389004132 dimer interface [polypeptide binding]; other site 1231389004133 putative PBP binding regions; other site 1231389004134 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1231389004135 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1231389004136 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1231389004137 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 1231389004138 metal binding site [ion binding]; metal-binding site 1231389004139 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 1231389004140 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1231389004141 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1231389004142 FeoA domain; Region: FeoA; pfam04023 1231389004143 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1231389004144 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1231389004145 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 1231389004146 dimer interface [polypeptide binding]; other site 1231389004147 ADP-ribose binding site [chemical binding]; other site 1231389004148 active site 1231389004149 nudix motif; other site 1231389004150 metal binding site [ion binding]; metal-binding site 1231389004151 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1231389004152 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1231389004153 Substrate binding site; other site 1231389004154 Mg++ binding site; other site 1231389004155 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 1231389004156 active site 1231389004157 substrate binding site [chemical binding]; other site 1231389004158 CoA binding site [chemical binding]; other site 1231389004159 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1231389004160 dimer interface [polypeptide binding]; other site 1231389004161 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1231389004162 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_16; cd07263 1231389004163 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1231389004164 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1231389004165 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 1231389004166 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 1231389004167 classical (c) SDRs; Region: SDR_c; cd05233 1231389004168 NAD(P) binding site [chemical binding]; other site 1231389004169 active site 1231389004170 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 1231389004171 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 1231389004172 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1231389004173 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1231389004174 Coenzyme A binding pocket [chemical binding]; other site 1231389004175 N-glycosyltransferase; Provisional; Region: PRK11204 1231389004176 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1231389004177 DXD motif; other site 1231389004178 CotH protein; Region: CotH; pfam08757 1231389004179 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1231389004180 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 1231389004181 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1231389004182 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1231389004183 active site 1231389004184 HIGH motif; other site 1231389004185 KMSKS motif; other site 1231389004186 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1231389004187 tRNA binding surface [nucleotide binding]; other site 1231389004188 anticodon binding site; other site 1231389004189 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 1231389004190 dimer interface [polypeptide binding]; other site 1231389004191 putative tRNA-binding site [nucleotide binding]; other site 1231389004192 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1231389004193 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1231389004194 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 1231389004195 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1231389004196 active site 1231389004197 putative catalytic site [active] 1231389004198 DNA binding site [nucleotide binding] 1231389004199 putative phosphate binding site [ion binding]; other site 1231389004200 metal binding site A [ion binding]; metal-binding site 1231389004201 AP binding site [nucleotide binding]; other site 1231389004202 metal binding site B [ion binding]; metal-binding site 1231389004203 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 1231389004204 ArsC family; Region: ArsC; pfam03960 1231389004205 putative ArsC-like catalytic residues; other site 1231389004206 putative TRX-like catalytic residues [active] 1231389004207 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1231389004208 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 1231389004209 DNA binding site [nucleotide binding] 1231389004210 active site 1231389004211 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 1231389004212 putative ligand binding site [chemical binding]; other site 1231389004213 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1231389004214 putative NAD binding site [chemical binding]; other site 1231389004215 putative catalytic site [active] 1231389004216 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1231389004217 L-serine binding site [chemical binding]; other site 1231389004218 ACT domain interface; other site 1231389004219 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 1231389004220 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1231389004221 catalytic residue [active] 1231389004222 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1231389004223 Predicted methyltransferases [General function prediction only]; Region: COG0313 1231389004224 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1231389004225 putative SAM binding site [chemical binding]; other site 1231389004226 putative homodimer interface [polypeptide binding]; other site 1231389004227 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 1231389004228 DNA polymerase III subunit delta'; Validated; Region: PRK07276 1231389004229 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1231389004230 thymidylate kinase; Validated; Region: tmk; PRK00698 1231389004231 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 1231389004232 TMP-binding site; other site 1231389004233 ATP-binding site [chemical binding]; other site 1231389004234 FOG: CBS domain [General function prediction only]; Region: COG0517 1231389004235 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_assoc2; cd04585 1231389004236 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1231389004237 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1231389004238 Walker A/P-loop; other site 1231389004239 ATP binding site [chemical binding]; other site 1231389004240 Q-loop/lid; other site 1231389004241 ABC transporter signature motif; other site 1231389004242 Walker B; other site 1231389004243 D-loop; other site 1231389004244 H-loop/switch region; other site 1231389004245 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1231389004246 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1231389004247 Walker A/P-loop; other site 1231389004248 ATP binding site [chemical binding]; other site 1231389004249 Q-loop/lid; other site 1231389004250 ABC transporter signature motif; other site 1231389004251 Walker B; other site 1231389004252 D-loop; other site 1231389004253 H-loop/switch region; other site 1231389004254 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1231389004255 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 1231389004256 TM-ABC transporter signature motif; other site 1231389004257 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 1231389004258 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1231389004259 TM-ABC transporter signature motif; other site 1231389004260 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1231389004261 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 1231389004262 putative ligand binding site [chemical binding]; other site 1231389004263 hypothetical protein; Provisional; Region: PRK02302 1231389004264 Clp protease; Region: CLP_protease; pfam00574 1231389004265 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1231389004266 oligomer interface [polypeptide binding]; other site 1231389004267 active site residues [active] 1231389004268 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1231389004269 active site 1231389004270 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1231389004271 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 1231389004272 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1231389004273 homodimer interface [polypeptide binding]; other site 1231389004274 catalytic residue [active] 1231389004275 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1231389004276 L-type amino acid transporter; Region: 2A0308; TIGR00911 1231389004277 hypothetical protein; Validated; Region: PRK00041 1231389004278 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1231389004279 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 1231389004280 RNA binding surface [nucleotide binding]; other site 1231389004281 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1231389004282 active site 1231389004283 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 1231389004284 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1231389004285 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1231389004286 DNA binding site [nucleotide binding] 1231389004287 Int/Topo IB signature motif; other site 1231389004288 active site 1231389004289 catalytic residues [active] 1231389004290 FOG: CBS domain [General function prediction only]; Region: COG0517 1231389004291 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 1231389004292 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1231389004293 active site 1231389004294 metal binding site [ion binding]; metal-binding site 1231389004295 homotetramer interface [polypeptide binding]; other site 1231389004296 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 1231389004297 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 1231389004298 active site 1231389004299 dimerization interface [polypeptide binding]; other site 1231389004300 glutamate racemase; Provisional; Region: PRK00865 1231389004301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 1231389004302 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1231389004303 HTH domain; Region: HTH_11; pfam08279 1231389004304 3H domain; Region: 3H; pfam02829 1231389004305 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1231389004306 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1231389004307 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1231389004308 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1231389004309 substrate binding site [chemical binding]; other site 1231389004310 activation loop (A-loop); other site 1231389004311 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1231389004312 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1231389004313 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1231389004314 acylphosphatase; Provisional; Region: PRK14434 1231389004315 OxaA-like protein precursor; Provisional; Region: PRK02463 1231389004316 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1231389004317 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1231389004318 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 1231389004319 dimer interface [polypeptide binding]; other site 1231389004320 conserved gate region; other site 1231389004321 putative PBP binding loops; other site 1231389004322 ABC-ATPase subunit interface; other site 1231389004323 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 1231389004324 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1231389004325 substrate binding pocket [chemical binding]; other site 1231389004326 membrane-bound complex binding site; other site 1231389004327 hinge residues; other site 1231389004328 amidase; Provisional; Region: PRK06529 1231389004329 Amidase; Region: Amidase; cl11426 1231389004330 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1231389004331 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1231389004332 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1231389004333 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1231389004334 Domain of unknown function (DUF4200); Region: DUF4200; pfam13863 1231389004335 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1231389004336 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1231389004337 dimerization interface [polypeptide binding]; other site 1231389004338 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1231389004339 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1231389004340 Coenzyme A binding pocket [chemical binding]; other site 1231389004341 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1231389004342 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1231389004343 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1231389004344 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1231389004345 SWIM zinc finger; Region: SWIM; pfam04434 1231389004346 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1231389004347 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1231389004348 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 1231389004349 ATP binding site [chemical binding]; other site 1231389004350 putative Mg++ binding site [ion binding]; other site 1231389004351 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 1231389004352 nucleotide binding region [chemical binding]; other site 1231389004353 ATP-binding site [chemical binding]; other site 1231389004354 GTP-binding protein Der; Reviewed; Region: PRK00093 1231389004355 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1231389004356 G1 box; other site 1231389004357 GTP/Mg2+ binding site [chemical binding]; other site 1231389004358 Switch I region; other site 1231389004359 G2 box; other site 1231389004360 Switch II region; other site 1231389004361 G3 box; other site 1231389004362 G4 box; other site 1231389004363 G5 box; other site 1231389004364 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1231389004365 G1 box; other site 1231389004366 GTP/Mg2+ binding site [chemical binding]; other site 1231389004367 Switch I region; other site 1231389004368 G2 box; other site 1231389004369 G3 box; other site 1231389004370 Switch II region; other site 1231389004371 G4 box; other site 1231389004372 G5 box; other site 1231389004373 primosomal protein DnaI; Reviewed; Region: PRK08939 1231389004374 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1231389004375 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 1231389004376 Walker A motif; other site 1231389004377 ATP binding site [chemical binding]; other site 1231389004378 Walker B motif; other site 1231389004379 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1231389004380 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 1231389004381 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1231389004382 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 1231389004383 ATP cone domain; Region: ATP-cone; pfam03477 1231389004384 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1231389004385 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 1231389004386 dimerization interface [polypeptide binding]; other site 1231389004387 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 1231389004388 dimer interface [polypeptide binding]; other site 1231389004389 phosphorylation site [posttranslational modification] 1231389004390 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 1231389004391 ATP binding site [chemical binding]; other site 1231389004392 Mg2+ binding site [ion binding]; other site 1231389004393 G-X-G motif; other site 1231389004394 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1231389004395 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 1231389004396 active site 1231389004397 phosphorylation site [posttranslational modification] 1231389004398 intermolecular recognition site; other site 1231389004399 dimerization interface [polypeptide binding]; other site 1231389004400 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 1231389004401 DNA binding site [nucleotide binding] 1231389004402 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1231389004403 heat shock protein HtpX; Provisional; Region: PRK04897 1231389004404 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1231389004405 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1231389004406 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 1231389004407 S-adenosylmethionine binding site [chemical binding]; other site 1231389004408 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1231389004409 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1231389004410 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1231389004411 TrkA-N domain; Region: TrkA_N; pfam02254 1231389004412 TrkA-C domain; Region: TrkA_C; pfam02080 1231389004413 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1231389004414 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1231389004415 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1231389004416 Walker A/P-loop; other site 1231389004417 ATP binding site [chemical binding]; other site 1231389004418 Q-loop/lid; other site 1231389004419 ABC transporter signature motif; other site 1231389004420 Walker B; other site 1231389004421 D-loop; other site 1231389004422 H-loop/switch region; other site 1231389004423 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 1231389004424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389004425 hypothetical protein; Provisional; Region: PRK13661 1231389004426 serine/threonine transporter SstT; Provisional; Region: PRK13628 1231389004427 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1231389004428 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1231389004429 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1231389004430 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1231389004431 NAD(P) binding site [chemical binding]; other site 1231389004432 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 1231389004433 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1231389004434 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1231389004435 Walker A/P-loop; other site 1231389004436 ATP binding site [chemical binding]; other site 1231389004437 Q-loop/lid; other site 1231389004438 ABC transporter signature motif; other site 1231389004439 Walker B; other site 1231389004440 D-loop; other site 1231389004441 H-loop/switch region; other site 1231389004442 NIL domain; Region: NIL; pfam09383 1231389004443 hypothetical protein; Provisional; Region: PRK06446 1231389004444 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 1231389004445 metal binding site [ion binding]; metal-binding site 1231389004446 dimer interface [polypeptide binding]; other site 1231389004447 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1231389004448 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1231389004449 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 1231389004450 substrate binding pocket [chemical binding]; other site 1231389004451 membrane-bound complex binding site; other site 1231389004452 hinge residues; other site 1231389004453 Peptidase C26; Region: Peptidase_C26; pfam07722 1231389004454 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1231389004455 catalytic triad [active] 1231389004456 hypothetical protein; Provisional; Region: PRK12378 1231389004457 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1231389004458 probable dihydroxyacetone kinase DhaK1b subunit; Region: dhaK1b; TIGR02362 1231389004459 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1231389004460 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1231389004461 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 1231389004462 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1231389004463 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 1231389004464 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 1231389004465 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1231389004466 amphipathic channel; other site 1231389004467 Asn-Pro-Ala signature motifs; other site 1231389004468 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1231389004469 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1231389004470 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1231389004471 DNA binding residues [nucleotide binding] 1231389004472 dimer interface [polypeptide binding]; other site 1231389004473 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1231389004474 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 1231389004475 hypothetical protein; Provisional; Region: PRK13670 1231389004476 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 1231389004477 S-adenosylmethionine binding site [chemical binding]; other site 1231389004478 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1231389004479 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1231389004480 catalytic triad [active] 1231389004481 conserved cis-peptide bond; other site 1231389004482 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1231389004483 Zn2+ binding site [ion binding]; other site 1231389004484 Mg2+ binding site [ion binding]; other site 1231389004485 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1231389004486 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1231389004487 active site 1231389004488 (T/H)XGH motif; other site 1231389004489 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1231389004490 GTPase YqeH; Provisional; Region: PRK13796 1231389004491 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1231389004492 GTP/Mg2+ binding site [chemical binding]; other site 1231389004493 G4 box; other site 1231389004494 G5 box; other site 1231389004495 G1 box; other site 1231389004496 Switch I region; other site 1231389004497 G2 box; other site 1231389004498 G3 box; other site 1231389004499 Switch II region; other site 1231389004500 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1231389004501 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 1231389004502 active site 1231389004503 motif I; other site 1231389004504 motif II; other site 1231389004505 EamA-like transporter family; Region: EamA; pfam00892 1231389004506 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1231389004507 EamA-like transporter family; Region: EamA; pfam00892 1231389004508 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1231389004509 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1231389004510 GatB domain; Region: GatB_Yqey; pfam02637 1231389004511 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1231389004512 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1231389004513 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1231389004514 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1231389004515 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1231389004516 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1231389004517 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1231389004518 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1231389004519 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1231389004520 FOG: CBS domain [General function prediction only]; Region: COG0517 1231389004521 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 1231389004522 Isochorismatase family; Region: Isochorismatase; pfam00857 1231389004523 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 1231389004524 catalytic triad [active] 1231389004525 conserved cis-peptide bond; other site 1231389004526 transcriptional repressor CodY; Validated; Region: PRK04158 1231389004527 CodY GAF-like domain; Region: CodY; pfam06018 1231389004528 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 1231389004529 dimerization interface [polypeptide binding]; other site 1231389004530 putative Zn2+ binding site [ion binding]; other site 1231389004531 putative DNA binding site [nucleotide binding]; other site 1231389004532 aminotransferase AlaT; Validated; Region: PRK09265 1231389004533 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 1231389004534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1231389004535 homodimer interface [polypeptide binding]; other site 1231389004536 catalytic residue [active] 1231389004537 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 1231389004538 Ligand Binding Site [chemical binding]; other site 1231389004539 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1231389004540 active site 1231389004541 homotetramer interface [polypeptide binding]; other site 1231389004542 homodimer interface [polypeptide binding]; other site 1231389004543 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1231389004544 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1231389004545 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1231389004546 shikimate binding site; other site 1231389004547 NAD(P) binding site [chemical binding]; other site 1231389004548 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 1231389004549 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1231389004550 active site 1231389004551 catalytic tetrad [active] 1231389004552 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1231389004553 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 1231389004554 generic binding surface II; other site 1231389004555 ssDNA binding site; other site 1231389004556 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 1231389004557 ATP binding site [chemical binding]; other site 1231389004558 putative Mg++ binding site [ion binding]; other site 1231389004559 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 1231389004560 nucleotide binding region [chemical binding]; other site 1231389004561 ATP-binding site [chemical binding]; other site 1231389004562 alanine racemase; Reviewed; Region: alr; PRK00053 1231389004563 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1231389004564 active site 1231389004565 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1231389004566 dimer interface [polypeptide binding]; other site 1231389004567 substrate binding site [chemical binding]; other site 1231389004568 catalytic residues [active] 1231389004569 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1231389004570 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1231389004571 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1231389004572 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1231389004573 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 1231389004574 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 1231389004575 nucleotide binding region [chemical binding]; other site 1231389004576 ATP-binding site [chemical binding]; other site 1231389004577 SEC-C motif; Region: SEC-C; pfam02810 1231389004578 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1231389004579 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 1231389004580 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1231389004581 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1231389004582 nucleotide binding site [chemical binding]; other site 1231389004583 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1231389004584 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 1231389004585 active site turn [active] 1231389004586 phosphorylation site [posttranslational modification] 1231389004587 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1231389004588 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 1231389004589 HPr interaction site; other site 1231389004590 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1231389004591 active site 1231389004592 phosphorylation site [posttranslational modification] 1231389004593 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 1231389004594 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1231389004595 substrate binding [chemical binding]; other site 1231389004596 active site 1231389004597 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1231389004598 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1231389004599 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1231389004600 DNA binding site [nucleotide binding] 1231389004601 domain linker motif; other site 1231389004602 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 1231389004603 dimerization interface [polypeptide binding]; other site 1231389004604 ligand binding site [chemical binding]; other site 1231389004605 sodium binding site [ion binding]; other site 1231389004606 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1231389004607 putative RNA binding site [nucleotide binding]; other site 1231389004608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1231389004609 elongation factor P; Validated; Region: PRK00529 1231389004610 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1231389004611 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 1231389004612 RNA binding site [nucleotide binding]; other site 1231389004613 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 1231389004614 RNA binding site [nucleotide binding]; other site 1231389004615 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 1231389004616 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 1231389004617 catalytic motif [active] 1231389004618 Zn binding site [ion binding]; other site 1231389004619 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1231389004620 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1231389004621 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 1231389004622 active site 1231389004623 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1231389004624 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1231389004625 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1231389004626 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1231389004627 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 1231389004628 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1231389004629 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1231389004630 Cl binding site [ion binding]; other site 1231389004631 oligomer interface [polypeptide binding]; other site 1231389004632 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1231389004633 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1231389004634 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 1231389004635 dimer interface [polypeptide binding]; other site 1231389004636 ssDNA binding site [nucleotide binding]; other site 1231389004637 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1231389004638 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1231389004639 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1231389004640 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1231389004641 minor groove reading motif; other site 1231389004642 helix-hairpin-helix signature motif; other site 1231389004643 substrate binding pocket [chemical binding]; other site 1231389004644 active site 1231389004645 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 1231389004646 DNA binding and oxoG recognition site [nucleotide binding] 1231389004647 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 1231389004648 non-specific DNA binding site [nucleotide binding]; other site 1231389004649 salt bridge; other site 1231389004650 sequence-specific DNA binding site [nucleotide binding]; other site 1231389004651 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 1231389004652 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1231389004653 catalytic residues [active] 1231389004654 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1231389004655 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1231389004656 active site 1231389004657 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 1231389004658 MutS domain III; Region: MutS_III; pfam05192 1231389004659 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1231389004660 Walker A/P-loop; other site 1231389004661 ATP binding site [chemical binding]; other site 1231389004662 Q-loop/lid; other site 1231389004663 ABC transporter signature motif; other site 1231389004664 Walker B; other site 1231389004665 D-loop; other site 1231389004666 H-loop/switch region; other site 1231389004667 Smr domain; Region: Smr; pfam01713 1231389004668 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1231389004669 Colicin V production protein; Region: Colicin_V; pfam02674 1231389004670 ribonuclease HIII; Provisional; Region: PRK00996 1231389004671 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1231389004672 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 1231389004673 RNA/DNA hybrid binding site [nucleotide binding]; other site 1231389004674 active site 1231389004675 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1231389004676 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 1231389004677 Catalytic site [active] 1231389004678 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1231389004679 AAA domain; Region: AAA_30; pfam13604 1231389004680 Family description; Region: UvrD_C_2; pfam13538 1231389004681 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1231389004682 active site 1231389004683 DNA polymerase IV; Validated; Region: PRK02406 1231389004684 DNA binding site [nucleotide binding] 1231389004685 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1231389004686 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1231389004687 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1231389004688 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1231389004689 Beta-lactamase; Region: Beta-lactamase; pfam00144 1231389004690 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 1231389004691 active site 1231389004692 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 1231389004693 amphipathic channel; other site 1231389004694 Asn-Pro-Ala signature motifs; other site 1231389004695 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 1231389004696 Ligand Binding Site [chemical binding]; other site 1231389004697 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 1231389004698 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1231389004699 putative substrate translocation pore; other site 1231389004700 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1231389004701 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 1231389004702 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1231389004703 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1231389004704 substrate binding pocket [chemical binding]; other site 1231389004705 chain length determination region; other site 1231389004706 substrate-Mg2+ binding site; other site 1231389004707 catalytic residues [active] 1231389004708 aspartate-rich region 1; other site 1231389004709 active site lid residues [active] 1231389004710 aspartate-rich region 2; other site 1231389004711 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 1231389004712 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 1231389004713 Walker A/P-loop; other site 1231389004714 ATP binding site [chemical binding]; other site 1231389004715 Q-loop/lid; other site 1231389004716 ABC transporter signature motif; other site 1231389004717 Walker B; other site 1231389004718 D-loop; other site 1231389004719 H-loop/switch region; other site 1231389004720 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 1231389004721 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1231389004722 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389004723 Walker A/P-loop; other site 1231389004724 ATP binding site [chemical binding]; other site 1231389004725 Q-loop/lid; other site 1231389004726 ABC transporter signature motif; other site 1231389004727 Walker B; other site 1231389004728 D-loop; other site 1231389004729 H-loop/switch region; other site 1231389004730 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1231389004731 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1231389004732 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1231389004733 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1231389004734 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1231389004735 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1231389004736 AAA domain; Region: AAA_21; pfam13304 1231389004737 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389004738 Walker B; other site 1231389004739 D-loop; other site 1231389004740 H-loop/switch region; other site 1231389004741 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1231389004742 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1231389004743 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1231389004744 hypothetical protein; Validated; Region: PRK00153 1231389004745 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1231389004746 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 1231389004747 S-adenosylmethionine binding site [chemical binding]; other site 1231389004748 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1231389004749 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1231389004750 DNA binding residues [nucleotide binding] 1231389004751 dimer interface [polypeptide binding]; other site 1231389004752 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1231389004753 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1231389004754 active site 1231389004755 catalytic site [active] 1231389004756 substrate binding site [chemical binding]; other site 1231389004757 HI0933-like protein; Region: HI0933_like; pfam03486 1231389004758 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1231389004759 nucleotide binding site/active site [active] 1231389004760 HIT family signature motif; other site 1231389004761 catalytic residue [active] 1231389004762 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1231389004763 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1231389004764 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 1231389004765 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1231389004766 catalytic residue [active] 1231389004767 UGMP family protein; Validated; Region: PRK09604 1231389004768 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1231389004769 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1231389004770 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1231389004771 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1231389004772 Coenzyme A binding pocket [chemical binding]; other site 1231389004773 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1231389004774 Glycoprotease family; Region: Peptidase_M22; pfam00814 1231389004775 hypothetical protein; Provisional; Region: PRK13667 1231389004776 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1231389004777 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1231389004778 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1231389004779 CHAP domain; Region: CHAP; cl17642 1231389004780 Surface antigen [General function prediction only]; Region: COG3942 1231389004781 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1231389004782 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1231389004783 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1231389004784 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1231389004785 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1231389004786 DNA binding residues [nucleotide binding] 1231389004787 putative dimer interface [polypeptide binding]; other site 1231389004788 Predicted membrane protein [Function unknown]; Region: COG4129 1231389004789 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1231389004790 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1231389004791 Phosphoglycerate kinase; Region: PGK; pfam00162 1231389004792 substrate binding site [chemical binding]; other site 1231389004793 hinge regions; other site 1231389004794 ADP binding site [chemical binding]; other site 1231389004795 catalytic site [active] 1231389004796 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 1231389004797 active site 1231389004798 motif I; other site 1231389004799 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1231389004800 motif II; other site 1231389004801 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1231389004802 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1231389004803 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1231389004804 elongation factor G; Reviewed; Region: PRK00007 1231389004805 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1231389004806 G1 box; other site 1231389004807 putative GEF interaction site [polypeptide binding]; other site 1231389004808 GTP/Mg2+ binding site [chemical binding]; other site 1231389004809 Switch I region; other site 1231389004810 G2 box; other site 1231389004811 G3 box; other site 1231389004812 Switch II region; other site 1231389004813 G4 box; other site 1231389004814 G5 box; other site 1231389004815 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 1231389004816 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 1231389004817 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 1231389004818 30S ribosomal protein S7; Validated; Region: PRK05302 1231389004819 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 1231389004820 S17 interaction site [polypeptide binding]; other site 1231389004821 S8 interaction site; other site 1231389004822 16S rRNA interaction site [nucleotide binding]; other site 1231389004823 streptomycin interaction site [chemical binding]; other site 1231389004824 23S rRNA interaction site [nucleotide binding]; other site 1231389004825 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1231389004826 pur operon repressor; Provisional; Region: PRK09213 1231389004827 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1231389004828 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1231389004829 active site 1231389004830 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 1231389004831 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 1231389004832 generic binding surface II; other site 1231389004833 generic binding surface I; other site 1231389004834 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1231389004835 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1231389004836 Zn2+ binding site [ion binding]; other site 1231389004837 Mg2+ binding site [ion binding]; other site 1231389004838 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1231389004839 RmuC family; Region: RmuC; pfam02646 1231389004840 Thiamine pyrophosphokinase; Region: TPK; cd07995 1231389004841 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1231389004842 active site 1231389004843 dimerization interface [polypeptide binding]; other site 1231389004844 thiamine binding site [chemical binding]; other site 1231389004845 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1231389004846 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 1231389004847 substrate binding site [chemical binding]; other site 1231389004848 hexamer interface [polypeptide binding]; other site 1231389004849 metal binding site [ion binding]; metal-binding site 1231389004850 GTPase RsgA; Reviewed; Region: PRK00098 1231389004851 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 1231389004852 RNA binding site [nucleotide binding]; other site 1231389004853 homodimer interface [polypeptide binding]; other site 1231389004854 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1231389004855 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1231389004856 GTP/Mg2+ binding site [chemical binding]; other site 1231389004857 G4 box; other site 1231389004858 G1 box; other site 1231389004859 Switch I region; other site 1231389004860 G2 box; other site 1231389004861 G3 box; other site 1231389004862 Switch II region; other site 1231389004863 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1231389004864 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 1231389004865 S-adenosylmethionine binding site [chemical binding]; other site 1231389004866 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1231389004867 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 1231389004868 S-adenosylmethionine binding site [chemical binding]; other site 1231389004869 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 1231389004870 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1231389004871 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1231389004872 conserved cys residue [active] 1231389004873 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1231389004874 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 1231389004875 putative active site [active] 1231389004876 putative metal binding site [ion binding]; other site 1231389004877 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1231389004878 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1231389004879 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1231389004880 active site 1231389004881 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1231389004882 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 1231389004883 DltD N-terminal region; Region: DltD_N; pfam04915 1231389004884 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 1231389004885 DltD central region; Region: DltD_M; pfam04918 1231389004886 DltD C-terminal region; Region: DltD_C; pfam04914 1231389004887 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 1231389004888 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 1231389004889 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1231389004890 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1231389004891 acyl-activating enzyme (AAE) consensus motif; other site 1231389004892 AMP binding site [chemical binding]; other site 1231389004893 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1231389004894 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 1231389004895 dimer interface [polypeptide binding]; other site 1231389004896 phosphorylation site [posttranslational modification] 1231389004897 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 1231389004898 ATP binding site [chemical binding]; other site 1231389004899 Mg2+ binding site [ion binding]; other site 1231389004900 G-X-G motif; other site 1231389004901 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1231389004902 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 1231389004903 active site 1231389004904 phosphorylation site [posttranslational modification] 1231389004905 intermolecular recognition site; other site 1231389004906 dimerization interface [polypeptide binding]; other site 1231389004907 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 1231389004908 DNA binding site [nucleotide binding] 1231389004909 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1231389004910 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 1231389004911 Nucleoside recognition; Region: Gate; pfam07670 1231389004912 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1231389004913 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 1231389004914 dimer interface [polypeptide binding]; other site 1231389004915 conserved gate region; other site 1231389004916 putative PBP binding loops; other site 1231389004917 ABC-ATPase subunit interface; other site 1231389004918 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1231389004919 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1231389004920 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1231389004921 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1231389004922 Walker A/P-loop; other site 1231389004923 ATP binding site [chemical binding]; other site 1231389004924 Q-loop/lid; other site 1231389004925 ABC transporter signature motif; other site 1231389004926 Walker B; other site 1231389004927 D-loop; other site 1231389004928 H-loop/switch region; other site 1231389004929 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 1231389004930 XFP N-terminal domain; Region: XFP_N; pfam09364 1231389004931 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 1231389004932 XFP C-terminal domain; Region: XFP_C; pfam09363 1231389004933 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1231389004934 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1231389004935 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1231389004936 PRD domain; Region: PRD; pfam00874 1231389004937 PRD domain; Region: PRD; pfam00874 1231389004938 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 1231389004939 active site 1231389004940 P-loop; other site 1231389004941 phosphorylation site [posttranslational modification] 1231389004942 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1231389004943 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1231389004944 Amidohydrolase; Region: Amidohydro_2; pfam04909 1231389004945 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1231389004946 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 1231389004947 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1231389004948 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 1231389004949 putative ligand binding site [chemical binding]; other site 1231389004950 putative NAD binding site [chemical binding]; other site 1231389004951 catalytic site [active] 1231389004952 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1231389004953 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1231389004954 DNA binding site [nucleotide binding] 1231389004955 domain linker motif; other site 1231389004956 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1231389004957 putative dimerization interface [polypeptide binding]; other site 1231389004958 putative ligand binding site [chemical binding]; other site 1231389004959 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1231389004960 active site 1231389004961 intersubunit interactions; other site 1231389004962 catalytic residue [active] 1231389004963 L-ribulose-5-phosphate 4-epimerase; Provisional; Region: araD; PRK13145 1231389004964 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1231389004965 intersubunit interface [polypeptide binding]; other site 1231389004966 active site 1231389004967 Zn2+ binding site [ion binding]; other site 1231389004968 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1231389004969 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 1231389004970 AP (apurinic/apyrimidinic) site pocket; other site 1231389004971 DNA interaction; other site 1231389004972 Metal-binding active site; metal-binding site 1231389004973 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 1231389004974 active site 1231389004975 dimer interface [polypeptide binding]; other site 1231389004976 magnesium binding site [ion binding]; other site 1231389004977 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 1231389004978 active site 1231389004979 phosphorylation site [posttranslational modification] 1231389004980 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 1231389004981 active site 1231389004982 P-loop; other site 1231389004983 phosphorylation site [posttranslational modification] 1231389004984 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 1231389004985 L-aminoadipate-semialdehyde dehydrogenase; Region: alpha_am_amid; TIGR03443 1231389004986 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1231389004987 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 1231389004988 GDP-binding site [chemical binding]; other site 1231389004989 ACT binding site; other site 1231389004990 IMP binding site; other site 1231389004991 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1231389004992 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 1231389004993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1231389004994 YheO-like PAS domain; Region: PAS_6; pfam08348 1231389004995 HTH domain; Region: HTH_22; pfam13309 1231389004996 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1231389004997 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1231389004998 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1231389004999 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 1231389005000 Uncharacterized protein involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TelA; COG3853 1231389005001 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1231389005002 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 1231389005003 dimerization interface [polypeptide binding]; other site 1231389005004 domain crossover interface; other site 1231389005005 redox-dependent activation switch; other site 1231389005006 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1231389005007 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 1231389005008 FMN binding site [chemical binding]; other site 1231389005009 active site 1231389005010 catalytic residues [active] 1231389005011 substrate binding site [chemical binding]; other site 1231389005012 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1231389005013 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1231389005014 Substrate-binding site [chemical binding]; other site 1231389005015 Substrate specificity [chemical binding]; other site 1231389005016 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1231389005017 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1231389005018 Coenzyme A binding pocket [chemical binding]; other site 1231389005019 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1231389005020 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 1231389005021 Walker A motif; other site 1231389005022 ATP binding site [chemical binding]; other site 1231389005023 Walker B motif; other site 1231389005024 arginine finger; other site 1231389005025 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 1231389005026 Walker A motif; other site 1231389005027 ATP binding site [chemical binding]; other site 1231389005028 Walker B motif; other site 1231389005029 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1231389005030 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 1231389005031 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 1231389005032 elongation factor Ts; Provisional; Region: tsf; PRK09377 1231389005033 UBA/TS-N domain; Region: UBA; pfam00627 1231389005034 Elongation factor TS; Region: EF_TS; pfam00889 1231389005035 Elongation factor TS; Region: EF_TS; pfam00889 1231389005036 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 1231389005037 rRNA interaction site [nucleotide binding]; other site 1231389005038 S8 interaction site; other site 1231389005039 putative laminin-1 binding site; other site 1231389005040 peroxiredoxin; Region: AhpC; TIGR03137 1231389005041 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 1231389005042 dimer interface [polypeptide binding]; other site 1231389005043 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1231389005044 catalytic triad [active] 1231389005045 peroxidatic and resolving cysteines [active] 1231389005046 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1231389005047 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 1231389005048 catalytic residue [active] 1231389005049 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 1231389005050 catalytic residues [active] 1231389005051 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1231389005052 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1231389005053 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1231389005054 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1231389005055 putative dimer interface [polypeptide binding]; other site 1231389005056 catalytic triad [active] 1231389005057 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1231389005058 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1231389005059 active site 1231389005060 Zn binding site [ion binding]; other site 1231389005061 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1231389005062 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1231389005063 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1231389005064 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 1231389005065 putative substrate translocation pore; other site 1231389005066 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1231389005067 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 1231389005068 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 1231389005069 ligand binding site [chemical binding]; other site 1231389005070 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 1231389005071 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 1231389005072 active site 1231389005073 catalytic residues [active] 1231389005074 metal binding site [ion binding]; metal-binding site 1231389005075 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1231389005076 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1231389005077 DNA binding site [nucleotide binding] 1231389005078 domain linker motif; other site 1231389005079 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1231389005080 putative dimerization interface [polypeptide binding]; other site 1231389005081 putative ligand binding site [chemical binding]; other site 1231389005082 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 1231389005083 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1231389005084 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1231389005085 PTS_IIB, PTS system, Mannose/sorbose 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_man; cd00001 1231389005086 active site 1231389005087 phosphorylation site [posttranslational modification] 1231389005088 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 1231389005089 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 1231389005090 active pocket/dimerization site; other site 1231389005091 active site 1231389005092 phosphorylation site [posttranslational modification] 1231389005093 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 1231389005094 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1231389005095 NADP binding site [chemical binding]; other site 1231389005096 homodimer interface [polypeptide binding]; other site 1231389005097 active site 1231389005098 hypothetical protein; Provisional; Region: PRK09273 1231389005099 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 1231389005100 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 1231389005101 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 1231389005102 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1231389005103 substrate binding site [chemical binding]; other site 1231389005104 ATP binding site [chemical binding]; other site 1231389005105 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1231389005106 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1231389005107 active site 1231389005108 intersubunit interface [polypeptide binding]; other site 1231389005109 catalytic residue [active] 1231389005110 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1231389005111 MarR family; Region: MarR; pfam01047 1231389005112 MarR family; Region: MarR_2; cl17246 1231389005113 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1231389005114 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1231389005115 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 1231389005116 generic binding surface II; other site 1231389005117 generic binding surface I; other site 1231389005118 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1231389005119 active site 1231389005120 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1231389005121 active site 1231389005122 catalytic site [active] 1231389005123 substrate binding site [chemical binding]; other site 1231389005124 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1231389005125 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1231389005126 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1231389005127 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 1231389005128 motif 1; other site 1231389005129 dimer interface [polypeptide binding]; other site 1231389005130 active site 1231389005131 motif 2; other site 1231389005132 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 1231389005133 putative deacylase active site [active] 1231389005134 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 1231389005135 active site 1231389005136 motif 3; other site 1231389005137 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 1231389005138 anticodon binding site; other site 1231389005139 RIP metalloprotease RseP; Region: TIGR00054 1231389005140 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 1231389005141 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 1231389005142 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 1231389005143 protein binding site [polypeptide binding]; other site 1231389005144 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 1231389005145 putative substrate binding region [chemical binding]; other site 1231389005146 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1231389005147 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1231389005148 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1231389005149 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 1231389005150 catalytic residue [active] 1231389005151 putative FPP diphosphate binding site; other site 1231389005152 putative FPP binding hydrophobic cleft; other site 1231389005153 dimer interface [polypeptide binding]; other site 1231389005154 putative IPP diphosphate binding site; other site 1231389005155 preprotein translocase subunit YajC; Validated; Region: yajC; PRK06531 1231389005156 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 1231389005157 catalytic residues [active] 1231389005158 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1231389005159 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1231389005160 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1231389005161 putative NAD(P) binding site [chemical binding]; other site 1231389005162 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 1231389005163 PAS domain; Region: PAS_9; pfam13426 1231389005164 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1231389005165 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 1231389005166 active site 1231389005167 phosphorylation site [posttranslational modification] 1231389005168 intermolecular recognition site; other site 1231389005169 dimerization interface [polypeptide binding]; other site 1231389005170 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1231389005171 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1231389005172 NAD binding site [chemical binding]; other site 1231389005173 homodimer interface [polypeptide binding]; other site 1231389005174 active site 1231389005175 substrate binding site [chemical binding]; other site 1231389005176 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1231389005177 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 1231389005178 Ca binding site [ion binding]; other site 1231389005179 active site 1231389005180 catalytic site [active] 1231389005181 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1231389005182 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1231389005183 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1231389005184 Walker A/P-loop; other site 1231389005185 ATP binding site [chemical binding]; other site 1231389005186 Q-loop/lid; other site 1231389005187 ABC transporter signature motif; other site 1231389005188 Walker B; other site 1231389005189 D-loop; other site 1231389005190 H-loop/switch region; other site 1231389005191 TOBE domain; Region: TOBE_2; pfam08402 1231389005192 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1231389005193 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1231389005194 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1231389005195 active site 1231389005196 catalytic residues [active] 1231389005197 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 1231389005198 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 1231389005199 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 1231389005200 putative substrate binding site [chemical binding]; other site 1231389005201 putative ATP binding site [chemical binding]; other site 1231389005202 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 1231389005203 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 1231389005204 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1231389005205 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 1231389005206 Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]; Region: SgaB; COG3414 1231389005207 active site 1231389005208 P-loop; other site 1231389005209 phosphorylation site [posttranslational modification] 1231389005210 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 1231389005211 active site 1231389005212 phosphorylation site [posttranslational modification] 1231389005213 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1231389005214 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1231389005215 DNA-binding site [nucleotide binding]; DNA binding site 1231389005216 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1231389005217 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 1231389005218 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1231389005219 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1231389005220 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1231389005221 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1231389005222 intersubunit interface [polypeptide binding]; other site 1231389005223 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 1231389005224 putative active site [active] 1231389005225 dimerization interface [polypeptide binding]; other site 1231389005226 putative tRNAtyr binding site [nucleotide binding]; other site 1231389005227 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1231389005228 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1231389005229 Zn2+ binding site [ion binding]; other site 1231389005230 Mg2+ binding site [ion binding]; other site 1231389005231 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1231389005232 synthetase active site [active] 1231389005233 NTP binding site [chemical binding]; other site 1231389005234 metal binding site [ion binding]; metal-binding site 1231389005235 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 1231389005236 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1231389005237 flavoprotein NrdI; Provisional; Region: PRK02551 1231389005238 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1231389005239 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1231389005240 putative active site [active] 1231389005241 metal binding site [ion binding]; metal-binding site 1231389005242 putative oligomer interface [polypeptide binding]; other site 1231389005243 AAA domain; Region: AAA_33; pfam13671 1231389005244 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; cd02019 1231389005245 active site 1231389005246 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1231389005247 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1231389005248 Response regulator receiver domain; Region: Response_reg; pfam00072 1231389005249 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 1231389005250 active site 1231389005251 phosphorylation site [posttranslational modification] 1231389005252 intermolecular recognition site; other site 1231389005253 dimerization interface [polypeptide binding]; other site 1231389005254 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1231389005255 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1231389005256 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1231389005257 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1231389005258 Histidine kinase; Region: His_kinase; pfam06580 1231389005259 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 1231389005260 ATP binding site [chemical binding]; other site 1231389005261 Mg2+ binding site [ion binding]; other site 1231389005262 G-X-G motif; other site 1231389005263 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1231389005264 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1231389005265 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 1231389005266 active site 1231389005267 phosphorylation site [posttranslational modification] 1231389005268 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; cl00025 1231389005269 active site 1231389005270 active pocket/dimerization site; other site 1231389005271 phosphorylation site [posttranslational modification] 1231389005272 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1231389005273 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1231389005274 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 1231389005275 Walker A/P-loop; other site 1231389005276 ATP binding site [chemical binding]; other site 1231389005277 Q-loop/lid; other site 1231389005278 ABC transporter signature motif; other site 1231389005279 Walker B; other site 1231389005280 D-loop; other site 1231389005281 H-loop/switch region; other site 1231389005282 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 1231389005283 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 bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1231389005284 putative active site [active] 1231389005285 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1231389005286 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 1231389005287 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1231389005288 active site 1231389005289 phosphorylation site [posttranslational modification] 1231389005290 intermolecular recognition site; other site 1231389005291 dimerization interface [polypeptide binding]; other site 1231389005292 LytTr DNA-binding domain; Region: LytTR; pfam04397 1231389005293 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 1231389005294 putative catalytic site [active] 1231389005295 putative metal binding site [ion binding]; other site 1231389005296 putative phosphate binding site [ion binding]; other site 1231389005297 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1231389005298 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 1231389005299 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 1231389005300 active site turn [active] 1231389005301 phosphorylation site [posttranslational modification] 1231389005302 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1231389005303 HPr interaction site; other site 1231389005304 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1231389005305 active site 1231389005306 phosphorylation site [posttranslational modification] 1231389005307 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1231389005308 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 1231389005309 dimer interface [polypeptide binding]; other site 1231389005310 phosphorylation site [posttranslational modification] 1231389005311 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 1231389005312 ATP binding site [chemical binding]; other site 1231389005313 Mg2+ binding site [ion binding]; other site 1231389005314 G-X-G motif; other site 1231389005315 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 1231389005316 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1231389005317 active site 1231389005318 phosphorylation site [posttranslational modification] 1231389005319 intermolecular recognition site; other site 1231389005320 dimerization interface [polypeptide binding]; other site 1231389005321 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 1231389005322 DNA binding site [nucleotide binding] 1231389005323 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 1231389005324 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1231389005325 Walker A/P-loop; other site 1231389005326 ATP binding site [chemical binding]; other site 1231389005327 Q-loop/lid; other site 1231389005328 ABC transporter signature motif; other site 1231389005329 Walker B; other site 1231389005330 D-loop; other site 1231389005331 H-loop/switch region; other site 1231389005332 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1231389005333 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 1231389005334 dimer interface [polypeptide binding]; other site 1231389005335 conserved gate region; other site 1231389005336 putative PBP binding loops; other site 1231389005337 ABC-ATPase subunit interface; other site 1231389005338 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1231389005339 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 1231389005340 dimer interface [polypeptide binding]; other site 1231389005341 conserved gate region; other site 1231389005342 putative PBP binding loops; other site 1231389005343 ABC-ATPase subunit interface; other site 1231389005344 PBP superfamily domain; Region: PBP_like_2; cl17296 1231389005345 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1231389005346 PBP superfamily domain; Region: PBP_like_2; cl17296 1231389005347 Archaeal adenylate kinase [Nucleotide transport and metabolism]; Region: AdkA; cl17890 1231389005348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1231389005349 RNA methyltransferase, RsmE family; Region: TIGR00046 1231389005350 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1231389005351 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 1231389005352 S-adenosylmethionine binding site [chemical binding]; other site 1231389005353 MepB protein; Region: MepB; cl01985 1231389005354 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1231389005355 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1231389005356 DNA binding residues [nucleotide binding] 1231389005357 dimer interface [polypeptide binding]; other site 1231389005358 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1231389005359 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1231389005360 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1231389005361 Coenzyme A binding pocket [chemical binding]; other site 1231389005362 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_23; cd04682 1231389005363 nudix motif; other site 1231389005364 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 1231389005365 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 1231389005366 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 1231389005367 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1231389005368 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 1231389005369 non-specific DNA binding site [nucleotide binding]; other site 1231389005370 salt bridge; other site 1231389005371 sequence-specific DNA binding site [nucleotide binding]; other site 1231389005372 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1231389005373 recombination factor protein RarA; Reviewed; Region: PRK13342 1231389005374 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 1231389005375 Walker A motif; other site 1231389005376 ATP binding site [chemical binding]; other site 1231389005377 Walker B motif; other site 1231389005378 arginine finger; other site 1231389005379 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1231389005380 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1231389005381 Walker A/P-loop; other site 1231389005382 ATP binding site [chemical binding]; other site 1231389005383 Q-loop/lid; other site 1231389005384 ABC transporter signature motif; other site 1231389005385 Walker B; other site 1231389005386 D-loop; other site 1231389005387 exported signaling peptide, YydF/SAG_2028 family; Region: expor_sig_YdyF; TIGR04077 1231389005388 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 1231389005389 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 1231389005390 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 1231389005391 Predicted transcriptional regulators [Transcription]; Region: COG1695 1231389005392 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1231389005393 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1231389005394 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1231389005395 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1231389005396 Walker A/P-loop; other site 1231389005397 ATP binding site [chemical binding]; other site 1231389005398 Q-loop/lid; other site 1231389005399 ABC transporter signature motif; other site 1231389005400 Walker B; other site 1231389005401 D-loop; other site 1231389005402 H-loop/switch region; other site 1231389005403 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1231389005404 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 1231389005405 non-specific DNA binding site [nucleotide binding]; other site 1231389005406 salt bridge; other site 1231389005407 sequence-specific DNA binding site [nucleotide binding]; other site 1231389005408 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 1231389005409 active site 1231389005410 putative transposase OrfB; Reviewed; Region: PHA02517 1231389005411 HTH-like domain; Region: HTH_21; pfam13276 1231389005412 Integrase core domain; Region: rve; pfam00665 1231389005413 Integrase core domain; Region: rve_3; cl15866 1231389005414 CAAX protease self-immunity; Region: Abi; pfam02517 1231389005415 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 1231389005416 active site residue [active] 1231389005417 CAMP factor (Cfa); Region: CAMP_factor; pfam07373 1231389005418 topology modulation protein; Provisional; Region: PRK07261 1231389005419 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; cd02019 1231389005420 active site 1231389005421 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1231389005422 Glycerol dehydrogenase-like; Region: GlyDH-like2; cd08171 1231389005423 putative active site [active] 1231389005424 metal binding site [ion binding]; metal-binding site 1231389005425 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 1231389005426 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 1231389005427 FAD binding site [chemical binding]; other site 1231389005428 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1231389005429 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1231389005430 THF binding site; other site 1231389005431 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1231389005432 substrate binding site [chemical binding]; other site 1231389005433 THF binding site; other site 1231389005434 zinc-binding site [ion binding]; other site 1231389005435 Predicted membrane protein [Function unknown]; Region: COG4392 1231389005436 AzlC protein; Region: AzlC; cl00570 1231389005437 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1231389005438 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 1231389005439 active site 1231389005440 phosphorylation site [posttranslational modification] 1231389005441 intermolecular recognition site; other site 1231389005442 dimerization interface [polypeptide binding]; other site 1231389005443 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 1231389005444 DNA binding site [nucleotide binding] 1231389005445 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1231389005446 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 1231389005447 dimer interface [polypeptide binding]; other site 1231389005448 phosphorylation site [posttranslational modification] 1231389005449 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1231389005450 Mg2+ binding site [ion binding]; other site 1231389005451 G-X-G motif; other site 1231389005452 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1231389005453 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1231389005454 HIGH motif; other site 1231389005455 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1231389005456 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1231389005457 active site 1231389005458 KMSKS motif; other site 1231389005459 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1231389005460 tRNA binding surface [nucleotide binding]; other site 1231389005461 benzoate transport; Region: 2A0115; TIGR00895 1231389005462 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 1231389005463 putative substrate translocation pore; other site 1231389005464 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1231389005465 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1231389005466 active site 1231389005467 nucleophile elbow; other site 1231389005468 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1231389005469 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1231389005470 putative homodimer interface [polypeptide binding]; other site 1231389005471 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1231389005472 heterodimer interface [polypeptide binding]; other site 1231389005473 homodimer interface [polypeptide binding]; other site 1231389005474 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1231389005475 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1231389005476 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 1231389005477 Transglycosylase; Region: Transgly; pfam00912 1231389005478 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1231389005479 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1231389005480 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1231389005481 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1231389005482 active site 1231389005483 Predicted membrane protein [Function unknown]; Region: COG4640 1231389005484 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1231389005485 intersubunit interface [polypeptide binding]; other site 1231389005486 active site 1231389005487 catalytic residue [active] 1231389005488 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1231389005489 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1231389005490 Nucleoside recognition; Region: Gate; pfam07670 1231389005491 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1231389005492 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1231389005493 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1231389005494 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1231389005495 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1231389005496 DNA-binding site [nucleotide binding]; DNA binding site 1231389005497 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1231389005498 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 1231389005499 ring oligomerisation interface [polypeptide binding]; other site 1231389005500 ATP/Mg binding site [chemical binding]; other site 1231389005501 stacking interactions; other site 1231389005502 hinge regions; other site 1231389005503 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 1231389005504 oligomerisation interface [polypeptide binding]; other site 1231389005505 mobile loop; other site 1231389005506 roof hairpin; other site 1231389005507 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1231389005508 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389005509 Walker A/P-loop; other site 1231389005510 ATP binding site [chemical binding]; other site 1231389005511 Q-loop/lid; other site 1231389005512 ABC transporter signature motif; other site 1231389005513 Walker B; other site 1231389005514 D-loop; other site 1231389005515 H-loop/switch region; other site 1231389005516 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1231389005517 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 1231389005518 TM-ABC transporter signature motif; other site 1231389005519 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 1231389005520 zinc binding site [ion binding]; other site 1231389005521 putative ligand binding site [chemical binding]; other site 1231389005522 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 1231389005523 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1231389005524 active site 1231389005525 motif I; other site 1231389005526 motif II; other site 1231389005527 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1231389005528 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 1231389005529 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 1231389005530 putative metal binding site [ion binding]; other site 1231389005531 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1231389005532 hypothetical protein; Validated; Region: PRK02101 1231389005533 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1231389005534 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 1231389005535 FeS/SAM binding site; other site 1231389005536 Predicted acetyltransferase [General function prediction only]; Region: COG3981 1231389005537 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1231389005538 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1231389005539 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1231389005540 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1231389005541 ATP cone domain; Region: ATP-cone; pfam03477 1231389005542 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1231389005543 effector binding site; other site 1231389005544 active site 1231389005545 Zn binding site [ion binding]; other site 1231389005546 glycine loop; other site 1231389005547 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 1231389005548 hypothetical protein; Provisional; Region: PRK13678 1231389005549 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1231389005550 hypothetical protein; Provisional; Region: PRK05473 1231389005551 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 1231389005552 ArsC family; Region: ArsC; pfam03960 1231389005553 putative catalytic residues [active] 1231389005554 thiol/disulfide switch; other site 1231389005555 recombinase A; Provisional; Region: recA; PRK09354 1231389005556 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 1231389005557 hexamer interface [polypeptide binding]; other site 1231389005558 Walker A motif; other site 1231389005559 ATP binding site [chemical binding]; other site 1231389005560 Walker B motif; other site 1231389005561 competence damage-inducible protein A; Provisional; Region: PRK00549 1231389005562 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 1231389005563 putative MPT binding site; other site 1231389005564 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1231389005565 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1231389005566 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1231389005567 RuvA N terminal domain; Region: RuvA_N; pfam01330 1231389005568 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 1231389005569 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1231389005570 putative substrate translocation pore; other site 1231389005571 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1231389005572 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 1231389005573 ATP binding site [chemical binding]; other site 1231389005574 Mg2+ binding site [ion binding]; other site 1231389005575 G-X-G motif; other site 1231389005576 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 1231389005577 ATP binding site [chemical binding]; other site 1231389005578 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1231389005579 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 1231389005580 DNA-binding site [nucleotide binding]; DNA binding site 1231389005581 RNA-binding motif; other site 1231389005582 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1231389005583 MutS domain I; Region: MutS_I; pfam01624 1231389005584 MutS domain II; Region: MutS_II; pfam05188 1231389005585 MutS domain III; Region: MutS_III; pfam05192 1231389005586 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1231389005587 Walker A/P-loop; other site 1231389005588 ATP binding site [chemical binding]; other site 1231389005589 Q-loop/lid; other site 1231389005590 ABC transporter signature motif; other site 1231389005591 Walker B; other site 1231389005592 D-loop; other site 1231389005593 H-loop/switch region; other site 1231389005594 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1231389005595 arginine repressor; Region: argR_whole; TIGR01529 1231389005596 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1231389005597 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1231389005598 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1231389005599 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1231389005600 active site 1231389005601 HIGH motif; other site 1231389005602 KMSK motif region; other site 1231389005603 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1231389005604 tRNA binding surface [nucleotide binding]; other site 1231389005605 anticodon binding site; other site 1231389005606 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1231389005607 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1231389005608 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1231389005609 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1231389005610 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1231389005611 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1231389005612 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1231389005613 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1231389005614 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1231389005615 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1231389005616 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 1231389005617 dimer interface [polypeptide binding]; other site 1231389005618 anticodon binding site; other site 1231389005619 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 1231389005620 homodimer interface [polypeptide binding]; other site 1231389005621 motif 1; other site 1231389005622 active site 1231389005623 motif 2; other site 1231389005624 GAD domain; Region: GAD; pfam02938 1231389005625 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 1231389005626 motif 3; other site 1231389005627 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1231389005628 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 1231389005629 dimer interface [polypeptide binding]; other site 1231389005630 motif 1; other site 1231389005631 active site 1231389005632 motif 2; other site 1231389005633 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 1231389005634 anticodon binding site; other site 1231389005635 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1231389005636 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1231389005637 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 1231389005638 carbamate kinase; Reviewed; Region: PRK12686 1231389005639 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1231389005640 putative substrate binding site [chemical binding]; other site 1231389005641 nucleotide binding site [chemical binding]; other site 1231389005642 nucleotide binding site [chemical binding]; other site 1231389005643 homodimer interface [polypeptide binding]; other site 1231389005644 ornithine carbamoyltransferase; Provisional; Region: PRK04284 1231389005645 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1231389005646 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1231389005647 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1231389005648 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 1231389005649 ATP binding site [chemical binding]; other site 1231389005650 Mg2+ binding site [ion binding]; other site 1231389005651 G-X-G motif; other site 1231389005652 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 1231389005653 Response regulator receiver domain; Region: Response_reg; pfam00072 1231389005654 active site 1231389005655 phosphorylation site [posttranslational modification] 1231389005656 intermolecular recognition site; other site 1231389005657 dimerization interface [polypeptide binding]; other site 1231389005658 YcbB domain; Region: YcbB; pfam08664 1231389005659 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1231389005660 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389005661 Walker A/P-loop; other site 1231389005662 ATP binding site [chemical binding]; other site 1231389005663 Q-loop/lid; other site 1231389005664 ABC transporter signature motif; other site 1231389005665 Walker B; other site 1231389005666 D-loop; other site 1231389005667 H-loop/switch region; other site 1231389005668 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 1231389005669 dimer interface [polypeptide binding]; other site 1231389005670 conserved gate region; other site 1231389005671 ABC-ATPase subunit interface; other site 1231389005672 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1231389005673 Predicted integral membrane protein [Function unknown]; Region: COG0392 1231389005674 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1231389005675 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1231389005676 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1231389005677 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1231389005678 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1231389005679 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1231389005680 Predicted membrane protein [Function unknown]; Region: COG1511 1231389005681 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1231389005682 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1231389005683 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1231389005684 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 1231389005685 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1231389005686 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1231389005687 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 1231389005688 RNA binding surface [nucleotide binding]; other site 1231389005689 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 1231389005690 replicative DNA helicase; Provisional; Region: PRK05748 1231389005691 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1231389005692 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 1231389005693 Walker A motif; other site 1231389005694 ATP binding site [chemical binding]; other site 1231389005695 Walker B motif; other site 1231389005696 DNA binding loops [nucleotide binding] 1231389005697 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1231389005698 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1231389005699 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1231389005700 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1231389005701 DHH family; Region: DHH; pfam01368 1231389005702 DHHA1 domain; Region: DHHA1; pfam02272 1231389005703 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1231389005704 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1231389005705 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1231389005706 MarC family integral membrane protein; Region: MarC; cl00919 1231389005707 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1231389005708 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 1231389005709 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1231389005710 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1231389005711 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1231389005712 putative L-serine binding site [chemical binding]; other site 1231389005713 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1231389005714 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1231389005715 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 1231389005716 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1231389005717 catalytic residue [active] 1231389005718 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1231389005719 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1231389005720 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 1231389005721 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1231389005722 Walker A/P-loop; other site 1231389005723 ATP binding site [chemical binding]; other site 1231389005724 Q-loop/lid; other site 1231389005725 ABC transporter signature motif; other site 1231389005726 Walker B; other site 1231389005727 D-loop; other site 1231389005728 H-loop/switch region; other site 1231389005729 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 1231389005730 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1231389005731 Walker A/P-loop; other site 1231389005732 ATP binding site [chemical binding]; other site 1231389005733 Q-loop/lid; other site 1231389005734 ABC transporter signature motif; other site 1231389005735 Walker B; other site 1231389005736 D-loop; other site 1231389005737 H-loop/switch region; other site 1231389005738 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1231389005739 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1231389005740 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1231389005741 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1231389005742 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1231389005743 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1231389005744 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 1231389005745 RNA binding surface [nucleotide binding]; other site 1231389005746 recombination protein F; Reviewed; Region: recF; PRK00064 1231389005747 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1231389005748 Walker A/P-loop; other site 1231389005749 ATP binding site [chemical binding]; other site 1231389005750 Q-loop/lid; other site 1231389005751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389005752 ABC transporter signature motif; other site 1231389005753 Walker B; other site 1231389005754 D-loop; other site 1231389005755 H-loop/switch region; other site 1231389005756 Sugar transport protein; Region: Sugar_transport; pfam06800 1231389005757 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 1231389005758 non-specific DNA binding site [nucleotide binding]; other site 1231389005759 salt bridge; other site 1231389005760 sequence-specific DNA binding site [nucleotide binding]; other site 1231389005761 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1231389005762 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 1231389005763 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 1231389005764 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 1231389005765 active site 1231389005766 Arginine repressor [Transcription]; Region: ArgR; COG1438 1231389005767 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1231389005768 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1231389005769 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1231389005770 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 1231389005771 ligand binding site [chemical binding]; other site 1231389005772 flexible hinge region; other site 1231389005773 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 1231389005774 non-specific DNA interactions [nucleotide binding]; other site 1231389005775 DNA binding site [nucleotide binding] 1231389005776 sequence specific DNA binding site [nucleotide binding]; other site 1231389005777 putative cAMP binding site [chemical binding]; other site 1231389005778 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1231389005779 B3/4 domain; Region: B3_4; pfam03483 1231389005780 arginine deiminase; Provisional; Region: PRK01388 1231389005781 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1231389005782 Coenzyme A binding pocket [chemical binding]; other site 1231389005783 ornithine carbamoyltransferase; Validated; Region: PRK02102 1231389005784 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1231389005785 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1231389005786 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1231389005787 carbamate kinase; Reviewed; Region: PRK12686 1231389005788 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1231389005789 putative substrate binding site [chemical binding]; other site 1231389005790 nucleotide binding site [chemical binding]; other site 1231389005791 nucleotide binding site [chemical binding]; other site 1231389005792 homodimer interface [polypeptide binding]; other site 1231389005793 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1231389005794 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1231389005795 active site 1231389005796 HIGH motif; other site 1231389005797 dimer interface [polypeptide binding]; other site 1231389005798 KMSKS motif; other site 1231389005799 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1231389005800 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1231389005801 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1231389005802 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1231389005803 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1231389005804 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1231389005805 Walker A/P-loop; other site 1231389005806 ATP binding site [chemical binding]; other site 1231389005807 Q-loop/lid; other site 1231389005808 ABC transporter signature motif; other site 1231389005809 Walker B; other site 1231389005810 D-loop; other site 1231389005811 H-loop/switch region; other site 1231389005812 ABC transporter; Region: ABC_tran_2; pfam12848 1231389005813 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1231389005814 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 1231389005815 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1231389005816 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1231389005817 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 1231389005818 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1231389005819 ParB-like nuclease domain; Region: ParBc; pfam02195 1231389005820 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775