-- dump date 20140620_081736 -- class Genbank::misc_feature -- table misc_feature_note -- id note 486410000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 486410000002 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 486410000003 Walker A motif; other site 486410000004 ATP binding site [chemical binding]; other site 486410000005 Walker B motif; other site 486410000006 arginine finger; other site 486410000007 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 486410000008 DnaA box-binding interface [nucleotide binding]; other site 486410000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 486410000010 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 486410000011 putative DNA binding surface [nucleotide binding]; other site 486410000012 dimer interface [polypeptide binding]; other site 486410000013 beta-clamp/clamp loader binding surface; other site 486410000014 beta-clamp/translesion DNA polymerase binding surface; other site 486410000015 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 486410000016 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cl17280 486410000017 GTP-binding protein YchF; Reviewed; Region: PRK09601 486410000018 YchF GTPase; Region: YchF; cd01900 486410000019 G1 box; other site 486410000020 GTP/Mg2+ binding site [chemical binding]; other site 486410000021 Switch I region; other site 486410000022 G2 box; other site 486410000023 Switch II region; other site 486410000024 G3 box; other site 486410000025 G4 box; other site 486410000026 G5 box; other site 486410000027 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 486410000028 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 486410000029 putative active site [active] 486410000030 catalytic residue [active] 486410000031 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 486410000032 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 486410000033 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 486410000034 ATP binding site [chemical binding]; other site 486410000035 putative Mg++ binding site [ion binding]; other site 486410000036 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 486410000037 nucleotide binding region [chemical binding]; other site 486410000038 ATP-binding site [chemical binding]; other site 486410000039 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 486410000040 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 486410000041 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 486410000042 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 486410000043 RNA binding surface [nucleotide binding]; other site 486410000044 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 486410000045 Septum formation initiator; Region: DivIC; pfam04977 486410000046 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 486410000047 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 486410000048 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 486410000049 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 486410000050 Ligand Binding Site [chemical binding]; other site 486410000051 TilS substrate C-terminal domain; Region: TilS_C; smart00977 486410000052 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 486410000053 active site 486410000054 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 486410000055 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 486410000056 Walker A motif; other site 486410000057 ATP binding site [chemical binding]; other site 486410000058 Walker B motif; other site 486410000059 arginine finger; other site 486410000060 Peptidase family M41; Region: Peptidase_M41; pfam01434 486410000061 amino acid transporter; Region: 2A0306; TIGR00909 486410000062 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 486410000063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 486410000064 Surface antigen [General function prediction only]; Region: COG3942 486410000065 CHAP domain; Region: CHAP; pfam05257 486410000066 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 486410000067 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 486410000068 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 486410000069 active site 486410000070 Recombination protein O N terminal; Region: RecO_N; pfam11967 486410000071 DNA repair protein RecO; Region: reco; TIGR00613 486410000072 Recombination protein O C terminal; Region: RecO_C; pfam02565 486410000073 putative phosphate acyltransferase; Provisional; Region: PRK05331 486410000074 acyl carrier protein; Provisional; Region: PRK12449 486410000075 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 486410000076 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 486410000077 ATP binding site [chemical binding]; other site 486410000078 active site 486410000079 substrate binding site [chemical binding]; other site 486410000080 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 486410000081 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 486410000082 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 486410000083 dimerization interface [polypeptide binding]; other site 486410000084 ATP binding site [chemical binding]; other site 486410000085 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 486410000086 dimerization interface [polypeptide binding]; other site 486410000087 ATP binding site [chemical binding]; other site 486410000088 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 486410000089 putative active site [active] 486410000090 catalytic triad [active] 486410000091 amidophosphoribosyltransferase; Provisional; Region: PRK07272 486410000092 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 486410000093 active site 486410000094 tetramer interface [polypeptide binding]; other site 486410000095 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 486410000096 active site 486410000097 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 486410000098 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 486410000099 dimerization interface [polypeptide binding]; other site 486410000100 putative ATP binding site [chemical binding]; other site 486410000101 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 486410000102 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 486410000103 active site 486410000104 substrate binding site [chemical binding]; other site 486410000105 cosubstrate binding site; other site 486410000106 catalytic site [active] 486410000107 VanZ like family; Region: VanZ; pfam04892 486410000108 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 486410000109 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 486410000110 purine monophosphate binding site [chemical binding]; other site 486410000111 dimer interface [polypeptide binding]; other site 486410000112 putative catalytic residues [active] 486410000113 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 486410000114 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 486410000115 Surface antigen [General function prediction only]; Region: COG3942 486410000116 CHAP domain; Region: CHAP; pfam05257 486410000117 Bacterial SH3 domain; Region: SH3_5; pfam08460 486410000118 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 486410000119 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 486410000120 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 486410000121 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 486410000122 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 486410000123 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 486410000124 ATP-grasp domain; Region: ATP-grasp_4; cl17255 486410000125 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 486410000126 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 486410000127 adenylosuccinate lyase; Provisional; Region: PRK07492 486410000128 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 486410000129 tetramer interface [polypeptide binding]; other site 486410000130 active site 486410000131 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 486410000132 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 486410000133 non-specific DNA binding site [nucleotide binding]; other site 486410000134 salt bridge; other site 486410000135 sequence-specific DNA binding site [nucleotide binding]; other site 486410000136 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 486410000137 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 486410000138 Walker A motif; other site 486410000139 ATP binding site [chemical binding]; other site 486410000140 Walker B motif; other site 486410000141 arginine finger; other site 486410000142 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 486410000143 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 486410000144 Low molecular weight phosphatase family; Region: LMWPc; cd00115 486410000145 active site 486410000146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 486410000147 MORN repeat; Region: MORN; cl14787 486410000148 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 486410000149 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 486410000150 yrhL-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 active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 486410000151 catalytic triad [active] 486410000152 catalytic triad [active] 486410000153 oxyanion hole [active] 486410000154 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 486410000155 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 486410000156 putative catalytic cysteine [active] 486410000157 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 486410000158 putative active site [active] 486410000159 metal binding site [ion binding]; metal-binding site 486410000160 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 486410000161 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 486410000162 NAD binding site [chemical binding]; other site 486410000163 substrate binding site [chemical binding]; other site 486410000164 catalytic Zn binding site [ion binding]; other site 486410000165 tetramer interface [polypeptide binding]; other site 486410000166 structural Zn binding site [ion binding]; other site 486410000167 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 486410000168 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 486410000169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 486410000170 catalytic residue [active] 486410000171 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 486410000172 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 486410000173 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410000174 Integrase core domain; Region: rve; pfam00665 486410000175 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410000176 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 486410000177 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 486410000178 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 486410000179 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 486410000180 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 486410000181 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 486410000182 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 486410000183 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 486410000184 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 486410000185 putative translocon binding site; other site 486410000186 protein-rRNA interface [nucleotide binding]; other site 486410000187 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 486410000188 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 486410000189 G-X-X-G motif; other site 486410000190 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 486410000191 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 486410000192 23S rRNA interface [nucleotide binding]; other site 486410000193 5S rRNA interface [nucleotide binding]; other site 486410000194 putative antibiotic binding site [chemical binding]; other site 486410000195 L25 interface [polypeptide binding]; other site 486410000196 L27 interface [polypeptide binding]; other site 486410000197 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 486410000198 23S rRNA interface [nucleotide binding]; other site 486410000199 putative translocon interaction site; other site 486410000200 signal recognition particle (SRP54) interaction site; other site 486410000201 L23 interface [polypeptide binding]; other site 486410000202 trigger factor interaction site; other site 486410000203 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 486410000204 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 486410000205 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 486410000206 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 486410000207 RNA binding site [nucleotide binding]; other site 486410000208 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 486410000209 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 486410000210 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 486410000211 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 486410000212 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 486410000213 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 486410000214 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 486410000215 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 486410000216 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 486410000217 5S rRNA interface [nucleotide binding]; other site 486410000218 L27 interface [polypeptide binding]; other site 486410000219 23S rRNA interface [nucleotide binding]; other site 486410000220 L5 interface [polypeptide binding]; other site 486410000221 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 486410000222 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 486410000223 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 486410000224 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 486410000225 23S rRNA binding site [nucleotide binding]; other site 486410000226 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 486410000227 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 486410000228 SecY translocase; Region: SecY; pfam00344 486410000229 adenylate kinase; Reviewed; Region: adk; PRK00279 486410000230 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 486410000231 AMP-binding site [chemical binding]; other site 486410000232 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 486410000233 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 486410000234 rRNA binding site [nucleotide binding]; other site 486410000235 predicted 30S ribosome binding site; other site 486410000236 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 486410000237 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 486410000238 30S ribosomal protein S13; Region: bact_S13; TIGR03631 486410000239 30S ribosomal protein S11; Validated; Region: PRK05309 486410000240 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 486410000241 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 486410000242 alphaNTD homodimer interface [polypeptide binding]; other site 486410000243 alphaNTD - beta interaction site [polypeptide binding]; other site 486410000244 alphaNTD - beta' interaction site [polypeptide binding]; other site 486410000245 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 486410000246 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 486410000247 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410000248 Integrase core domain; Region: rve; pfam00665 486410000249 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410000250 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410000251 Integrase core domain; Region: rve; pfam00665 486410000252 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 486410000253 nudix motif; other site 486410000254 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 486410000255 UbiA prenyltransferase family; Region: UbiA; pfam01040 486410000256 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 486410000257 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 486410000258 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 486410000259 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 486410000260 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 486410000261 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 486410000262 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410000263 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410000264 Walker A/P-loop; other site 486410000265 ATP binding site [chemical binding]; other site 486410000266 Q-loop/lid; other site 486410000267 ABC transporter signature motif; other site 486410000268 Walker B; other site 486410000269 D-loop; other site 486410000270 H-loop/switch region; other site 486410000271 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 486410000272 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410000273 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 486410000274 Walker A/P-loop; other site 486410000275 ATP binding site [chemical binding]; other site 486410000276 Q-loop/lid; other site 486410000277 ABC transporter signature motif; other site 486410000278 Walker B; other site 486410000279 D-loop; other site 486410000280 H-loop/switch region; other site 486410000281 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 486410000282 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 486410000283 substrate binding pocket [chemical binding]; other site 486410000284 chain length determination region; other site 486410000285 substrate-Mg2+ binding site; other site 486410000286 catalytic residues [active] 486410000287 aspartate-rich region 1; other site 486410000288 active site lid residues [active] 486410000289 aspartate-rich region 2; other site 486410000290 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 486410000291 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 486410000292 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 486410000293 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 486410000294 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 486410000295 putative Zn2+ binding site [ion binding]; other site 486410000296 putative DNA binding site [nucleotide binding]; other site 486410000297 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 486410000298 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 486410000299 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 486410000300 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 486410000301 ABC-ATPase subunit interface; other site 486410000302 dimer interface [polypeptide binding]; other site 486410000303 putative PBP binding regions; other site 486410000304 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 486410000305 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 486410000306 active site 486410000307 HIGH motif; other site 486410000308 dimer interface [polypeptide binding]; other site 486410000309 KMSKS motif; other site 486410000310 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 486410000311 RNA binding surface [nucleotide binding]; other site 486410000312 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 486410000313 Transglycosylase; Region: Transgly; pfam00912 486410000314 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 486410000315 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 486410000316 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 486410000317 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 486410000318 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 486410000319 RPB1 interaction site [polypeptide binding]; other site 486410000320 RPB10 interaction site [polypeptide binding]; other site 486410000321 RPB11 interaction site [polypeptide binding]; other site 486410000322 RPB3 interaction site [polypeptide binding]; other site 486410000323 RPB12 interaction site [polypeptide binding]; other site 486410000324 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 486410000325 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 486410000326 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 486410000327 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 486410000328 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 486410000329 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 486410000330 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 486410000331 G-loop; other site 486410000332 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 486410000333 DNA binding site [nucleotide binding] 486410000334 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 486410000335 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 486410000336 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 486410000337 Walker A motif; other site 486410000338 ATP binding site [chemical binding]; other site 486410000339 Walker B motif; other site 486410000340 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 486410000341 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 486410000342 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 486410000343 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 486410000344 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 486410000345 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 486410000346 Methyltransferase domain; Region: Methyltransf_31; pfam13847 486410000347 Methyltransferase domain; Region: Methyltransf_26; pfam13659 486410000348 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 486410000349 propionate/acetate kinase; Provisional; Region: PRK12379 486410000350 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 486410000351 non-specific DNA binding site [nucleotide binding]; other site 486410000352 salt bridge; other site 486410000353 sequence-specific DNA binding site [nucleotide binding]; other site 486410000354 CAAX protease self-immunity; Region: Abi; pfam02517 486410000355 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 486410000356 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 486410000357 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 486410000358 glutamyl aminopeptidase; Region: glu_aminopep; TIGR03107 486410000359 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 486410000360 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 486410000361 catalytic residues [active] 486410000362 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 486410000363 putative tRNA-binding site [nucleotide binding]; other site 486410000364 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 486410000365 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 486410000366 dimer interface [polypeptide binding]; other site 486410000367 ssDNA binding site [nucleotide binding]; other site 486410000368 tetramer (dimer of dimers) interface [polypeptide binding]; other site 486410000369 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 486410000370 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 486410000371 Substrate-binding site [chemical binding]; other site 486410000372 Substrate specificity [chemical binding]; other site 486410000373 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 486410000374 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 486410000375 FMN binding site [chemical binding]; other site 486410000376 active site 486410000377 catalytic residues [active] 486410000378 substrate binding site [chemical binding]; other site 486410000379 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 486410000380 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 486410000381 dimerization interface [polypeptide binding]; other site 486410000382 domain crossover interface; other site 486410000383 redox-dependent activation switch; other site 486410000384 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 486410000385 Mga helix-turn-helix domain; Region: Mga; pfam05043 486410000386 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 486410000387 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 486410000388 Cna protein B-type domain; Region: Cna_B; pfam05738 486410000389 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 486410000390 active site 486410000391 catalytic site [active] 486410000392 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 486410000393 active site 486410000394 catalytic site [active] 486410000395 Cna protein B-type domain; Region: Cna_B; pfam05738 486410000396 Cna protein B-type domain; Region: Cna_B; pfam05738 486410000397 Cna protein B-type domain; Region: Cna_B; pfam05738 486410000398 Cna protein B-type domain; Region: Cna_B; pfam05738 486410000399 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 486410000400 Cna protein B-type domain; Region: Cna_B; pfam05738 486410000401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 486410000402 YheO-like PAS domain; Region: PAS_6; pfam08348 486410000403 HTH domain; Region: HTH_22; pfam13309 486410000404 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 486410000405 homotrimer interaction site [polypeptide binding]; other site 486410000406 putative active site [active] 486410000407 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 486410000408 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 486410000409 Uncharacterized protein involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TelA; COG3853 486410000410 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 486410000411 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 486410000412 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 486410000413 GDP-binding site [chemical binding]; other site 486410000414 ACT binding site; other site 486410000415 IMP binding site; other site 486410000416 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 486410000417 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 486410000418 ligand binding site [chemical binding]; other site 486410000419 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 486410000420 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 486410000421 FeS/SAM binding site; other site 486410000422 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 486410000423 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 486410000424 DNA-binding site [nucleotide binding]; DNA binding site 486410000425 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 486410000426 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 486410000427 Homeodomain-like domain; Region: HTH_23; cl17451 486410000428 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 486410000429 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 486410000430 active site 486410000431 methionine cluster; other site 486410000432 phosphorylation site [posttranslational modification] 486410000433 metal binding site [ion binding]; metal-binding site 486410000434 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 486410000435 active site 486410000436 P-loop; other site 486410000437 phosphorylation site [posttranslational modification] 486410000438 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 486410000439 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 486410000440 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 486410000441 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 486410000442 dimer interface [polypeptide binding]; other site 486410000443 active site 486410000444 glycine loop; other site 486410000445 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 486410000446 active site 486410000447 intersubunit interactions; other site 486410000448 catalytic residue [active] 486410000449 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 486410000450 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 486410000451 dimer interface [polypeptide binding]; other site 486410000452 active site 486410000453 metal binding site [ion binding]; metal-binding site 486410000454 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 486410000455 tetramer interfaces [polypeptide binding]; other site 486410000456 binuclear metal-binding site [ion binding]; other site 486410000457 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 486410000458 putative dimer interface [polypeptide binding]; other site 486410000459 catalytic triad [active] 486410000460 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 486410000461 putative deacylase active site [active] 486410000462 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 486410000463 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 486410000464 non-specific DNA binding site [nucleotide binding]; other site 486410000465 salt bridge; other site 486410000466 sequence-specific DNA binding site [nucleotide binding]; other site 486410000467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 486410000468 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 486410000469 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 486410000470 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410000471 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410000472 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 486410000473 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 486410000474 ligand binding site [chemical binding]; other site 486410000475 Predicted membrane protein [Function unknown]; Region: COG2364 486410000476 Maf-like protein; Region: Maf; pfam02545 486410000477 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 486410000478 putative active site [active] 486410000479 Enterocin A Immunity; Region: EntA_Immun; pfam08951 486410000480 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 486410000481 topology modulation protein; Provisional; Region: PRK07261 486410000482 AAA domain; Region: AAA_17; pfam13207 486410000483 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 486410000484 Coenzyme A binding pocket [chemical binding]; other site 486410000485 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410000486 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410000487 Integrase core domain; Region: rve; pfam00665 486410000488 radical SAM/SPASM domain Clo7bot peptide maturase; Region: rSAM_Clo7bot; TIGR04334 486410000489 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 486410000490 FeS/SAM binding site; other site 486410000491 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 486410000492 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 486410000493 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410000494 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 486410000495 Walker A/P-loop; other site 486410000496 ATP binding site [chemical binding]; other site 486410000497 Q-loop/lid; other site 486410000498 ABC transporter signature motif; other site 486410000499 Walker B; other site 486410000500 D-loop; other site 486410000501 H-loop/switch region; other site 486410000502 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 486410000503 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 486410000504 catalytic core [active] 486410000505 potential frameshift: common BLAST hit: gi|94991652|ref|YP_599751.1| transposase 486410000506 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410000507 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 486410000508 putative transposase OrfB; Reviewed; Region: PHA02517 486410000509 HTH-like domain; Region: HTH_21; pfam13276 486410000510 Integrase core domain; Region: rve; pfam00665 486410000511 Integrase core domain; Region: rve_3; pfam13683 486410000512 Transposase; Region: HTH_Tnp_1; pfam01527 486410000513 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 486410000514 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 486410000515 ATP binding site [chemical binding]; other site 486410000516 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 486410000517 active site 486410000518 ATP binding site [chemical binding]; other site 486410000519 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 486410000520 dimer interface [polypeptide binding]; other site 486410000521 tetramer interface [polypeptide binding]; other site 486410000522 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 486410000523 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410000524 Walker A/P-loop; other site 486410000525 ATP binding site [chemical binding]; other site 486410000526 Q-loop/lid; other site 486410000527 ABC transporter signature motif; other site 486410000528 Walker B; other site 486410000529 D-loop; other site 486410000530 H-loop/switch region; other site 486410000531 ABC-2 type transporter; Region: ABC2_membrane; cl17235 486410000532 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 486410000533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 486410000534 Transposase; Region: DDE_Tnp_ISL3; pfam01610 486410000535 potential protein location ( hypothetical protein [Streptococcus dysgalactiae subsp. equisimilis GGS_124]) that overlaps RNA (tRNA-K) 486410000536 recombination factor protein RarA; Reviewed; Region: PRK13342 486410000537 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 486410000538 Walker A motif; other site 486410000539 ATP binding site [chemical binding]; other site 486410000540 Walker B motif; other site 486410000541 arginine finger; other site 486410000542 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 486410000543 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 486410000544 Glutamine amidotransferase class-I; Region: GATase; pfam00117 486410000545 glutamine binding [chemical binding]; other site 486410000546 catalytic triad [active] 486410000547 aminodeoxychorismate synthase; Provisional; Region: PRK07508 486410000548 chorismate binding enzyme; Region: Chorismate_bind; cl10555 486410000549 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 486410000550 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 486410000551 substrate-cofactor binding pocket; other site 486410000552 pyridoxal 5'-phosphate binding site [chemical binding]; other site 486410000553 catalytic residue [active] 486410000554 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 486410000555 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 486410000556 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 486410000557 S-adenosylmethionine binding site [chemical binding]; other site 486410000558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 486410000559 RNA methyltransferase, RsmE family; Region: TIGR00046 486410000560 Transcriptional regulators [Transcription]; Region: PurR; COG1609 486410000561 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 486410000562 DNA binding site [nucleotide binding] 486410000563 domain linker motif; other site 486410000564 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 486410000565 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 486410000566 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 486410000567 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 486410000568 active site turn [active] 486410000569 phosphorylation site [posttranslational modification] 486410000570 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 486410000571 HPr interaction site; other site 486410000572 glycerol kinase (GK) interaction site [polypeptide binding]; other site 486410000573 active site 486410000574 phosphorylation site [posttranslational modification] 486410000575 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 486410000576 putative catalytic site [active] 486410000577 putative metal binding site [ion binding]; other site 486410000578 putative phosphate binding site [ion binding]; other site 486410000579 hypothetical protein; Provisional; Region: PRK06762 486410000580 AAA domain; Region: AAA_33; pfam13671 486410000581 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 486410000582 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 486410000583 putative oligomer interface [polypeptide binding]; other site 486410000584 putative active site [active] 486410000585 metal binding site [ion binding]; metal-binding site 486410000586 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 486410000587 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 486410000588 active site 486410000589 flavoprotein NrdI; Provisional; Region: PRK02551 486410000590 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 486410000591 Mga helix-turn-helix domain; Region: Mga; pfam05043 486410000592 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 486410000593 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 486410000594 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 486410000595 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 486410000596 Zn2+ binding site [ion binding]; other site 486410000597 Mg2+ binding site [ion binding]; other site 486410000598 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 486410000599 synthetase active site [active] 486410000600 NTP binding site [chemical binding]; other site 486410000601 metal binding site [ion binding]; metal-binding site 486410000602 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 486410000603 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 486410000604 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 486410000605 putative active site [active] 486410000606 dimerization interface [polypeptide binding]; other site 486410000607 putative tRNAtyr binding site [nucleotide binding]; other site 486410000608 Staphylokinase/Streptokinase family; Region: Staphylokinase; pfam02821 486410000609 Staphylokinase/Streptokinase family; Region: Staphylokinase; pfam02821 486410000610 Staphylokinase/Streptokinase family; Region: Staphylokinase; pfam02821 486410000611 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 486410000612 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 486410000613 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 486410000614 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 486410000615 Walker A/P-loop; other site 486410000616 ATP binding site [chemical binding]; other site 486410000617 Q-loop/lid; other site 486410000618 ABC transporter signature motif; other site 486410000619 Walker B; other site 486410000620 D-loop; other site 486410000621 H-loop/switch region; other site 486410000622 TOBE domain; Region: TOBE; pfam03459 486410000623 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 486410000624 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 486410000625 Ca binding site [ion binding]; other site 486410000626 active site 486410000627 catalytic site [active] 486410000628 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 486410000629 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 486410000630 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 486410000631 carbohydrate binding site [chemical binding]; other site 486410000632 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 486410000633 carbohydrate binding site [chemical binding]; other site 486410000634 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 486410000635 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 486410000636 Ca binding site [ion binding]; other site 486410000637 active site 486410000638 catalytic site [active] 486410000639 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 486410000640 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 486410000641 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 486410000642 catalytic residues [active] 486410000643 preprotein translocase subunit YajC; Validated; Region: yajC; PRK06531 486410000644 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 486410000645 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 486410000646 catalytic residue [active] 486410000647 putative FPP diphosphate binding site; other site 486410000648 putative FPP binding hydrophobic cleft; other site 486410000649 dimer interface [polypeptide binding]; other site 486410000650 putative IPP diphosphate binding site; other site 486410000651 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 486410000652 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 486410000653 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 486410000654 active site 486410000655 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 486410000656 Peptidase family M50; Region: Peptidase_M50; pfam02163 486410000657 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 486410000658 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 486410000659 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 486410000660 putative substrate binding region [chemical binding]; other site 486410000661 prolyl-tRNA synthetase; Provisional; Region: PRK09194 486410000662 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 486410000663 motif 1; other site 486410000664 dimer interface [polypeptide binding]; other site 486410000665 active site 486410000666 motif 2; other site 486410000667 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 486410000668 putative deacylase active site [active] 486410000669 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 486410000670 active site 486410000671 motif 3; other site 486410000672 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 486410000673 anticodon binding site; other site 486410000674 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 486410000675 DNA polymerase III PolC; Validated; Region: polC; PRK00448 486410000676 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 486410000677 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 486410000678 generic binding surface II; other site 486410000679 generic binding surface I; other site 486410000680 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 486410000681 active site 486410000682 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 486410000683 active site 486410000684 catalytic site [active] 486410000685 substrate binding site [chemical binding]; other site 486410000686 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 486410000687 putative PHP Thumb interface [polypeptide binding]; other site 486410000688 active site 486410000689 MarR family; Region: MarR_2; cl17246 486410000690 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 486410000691 Predicted flavoprotein [General function prediction only]; Region: COG0431 486410000692 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 486410000693 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 486410000694 active site 486410000695 catalytic residues [active] 486410000696 metal binding site [ion binding]; metal-binding site 486410000697 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 486410000698 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 486410000699 ligand binding site [chemical binding]; other site 486410000700 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 486410000701 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 486410000702 16S/18S rRNA binding site [nucleotide binding]; other site 486410000703 S13e-L30e interaction site [polypeptide binding]; other site 486410000704 25S rRNA binding site [nucleotide binding]; other site 486410000705 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 486410000706 PRD domain; Region: PRD; pfam00874 486410000707 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 486410000708 active site 486410000709 P-loop; other site 486410000710 phosphorylation site [posttranslational modification] 486410000711 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 486410000712 active site 486410000713 phosphorylation site [posttranslational modification] 486410000714 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 486410000715 active site 486410000716 P-loop; other site 486410000717 phosphorylation site [posttranslational modification] 486410000718 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 486410000719 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 486410000720 active site 486410000721 intersubunit interactions; other site 486410000722 catalytic residue [active] 486410000723 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 486410000724 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 486410000725 RNase E interface [polypeptide binding]; other site 486410000726 trimer interface [polypeptide binding]; other site 486410000727 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 486410000728 RNase E interface [polypeptide binding]; other site 486410000729 trimer interface [polypeptide binding]; other site 486410000730 active site 486410000731 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 486410000732 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 486410000733 RNA binding site [nucleotide binding]; other site 486410000734 domain interface; other site 486410000735 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 486410000736 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 486410000737 trimer interface [polypeptide binding]; other site 486410000738 active site 486410000739 substrate binding site [chemical binding]; other site 486410000740 CoA binding site [chemical binding]; other site 486410000741 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 486410000742 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 486410000743 active site 486410000744 HIGH motif; other site 486410000745 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 486410000746 KMSKS motif; other site 486410000747 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 486410000748 tRNA binding surface [nucleotide binding]; other site 486410000749 anticodon binding site; other site 486410000750 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 486410000751 active site 486410000752 metal binding site [ion binding]; metal-binding site 486410000753 dimerization interface [polypeptide binding]; other site 486410000754 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 486410000755 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 486410000756 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 486410000757 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 486410000758 Predicted RNA-binding protein containing a PIN domain [General function prediction only]; Region: COG3688 486410000759 EDD domain protein, DegV family; Region: DegV; TIGR00762 486410000760 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 486410000761 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 486410000762 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 486410000763 non-specific DNA binding site [nucleotide binding]; other site 486410000764 salt bridge; other site 486410000765 sequence-specific DNA binding site [nucleotide binding]; other site 486410000766 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 486410000767 potential frameshift: common BLAST hit: gi|94991493|ref|YP_599593.1| transposase 486410000768 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410000769 Integrase core domain; Region: rve; pfam00665 486410000770 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 486410000771 23S rRNA interface [nucleotide binding]; other site 486410000772 L3 interface [polypeptide binding]; other site 486410000773 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 486410000774 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 486410000775 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 486410000776 Int/Topo IB signature motif; other site 486410000777 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 486410000778 non-specific DNA binding site [nucleotide binding]; other site 486410000779 salt bridge; other site 486410000780 sequence-specific DNA binding site [nucleotide binding]; other site 486410000781 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 486410000782 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 486410000783 frame shift mutation; similar to replication initiation protein [Streptococcus agalactiae 2603V/R] 486410000784 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 486410000785 addiction module toxin, RelE/StbE family; Region: RelE_StbE; TIGR02385 486410000786 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 486410000787 active site 486410000788 Int/Topo IB signature motif; other site 486410000789 DNA binding site [nucleotide binding] 486410000790 potential frameshift: common BLAST hit: gi|94992254|ref|YP_600353.1| transposase 486410000791 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410000792 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 486410000793 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 486410000794 LanC is the cyclase enzyme of the lanthionine synthetase. Lanthinoine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as precursor peptides and then post-translationally modified to contain thioether cross-links...; Region: LanC; cd04793 486410000795 active site 486410000796 zinc binding site [ion binding]; other site 486410000797 H+ Antiporter protein; Region: 2A0121; TIGR00900 486410000798 potential frameshift: common BLAST hit: gi|116627059|ref|YP_819678.1| transcription regulator 486410000799 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 486410000800 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 486410000801 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 486410000802 cofactor binding site; other site 486410000803 DNA binding site [nucleotide binding] 486410000804 substrate interaction site [chemical binding]; other site 486410000805 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 486410000806 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 486410000807 putative DNA-binding cleft [nucleotide binding]; other site 486410000808 putative DNA clevage site; other site 486410000809 molecular lever; other site 486410000810 possible frame shift mutation; similar to ABC transporter ATP-binding protein-related protein [Leuconostoc citreum KM20] 486410000811 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 486410000812 PRD domain; Region: PRD; pfam00874 486410000813 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 486410000814 active site 486410000815 P-loop; other site 486410000816 phosphorylation site [posttranslational modification] 486410000817 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 486410000818 active site 486410000819 phosphorylation site [posttranslational modification] 486410000820 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 486410000821 active site 486410000822 phosphorylation site [posttranslational modification] 486410000823 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 486410000824 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 486410000825 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 486410000826 active site 486410000827 P-loop; other site 486410000828 phosphorylation site [posttranslational modification] 486410000829 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 486410000830 intersubunit interface [polypeptide binding]; other site 486410000831 active site 486410000832 zinc binding site [ion binding]; other site 486410000833 Na+ binding site [ion binding]; other site 486410000834 triosephosphate isomerase; Provisional; Region: PRK04302 486410000835 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 486410000836 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 486410000837 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 486410000838 active site 486410000839 motif I; other site 486410000840 motif II; other site 486410000841 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 486410000842 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 486410000843 aspartate kinase; Reviewed; Region: PRK09034 486410000844 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 486410000845 putative catalytic residues [active] 486410000846 putative nucleotide binding site [chemical binding]; other site 486410000847 putative aspartate binding site [chemical binding]; other site 486410000848 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 486410000849 allosteric regulatory residue; other site 486410000850 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 486410000851 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 486410000852 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 486410000853 dimerization interface 3.5A [polypeptide binding]; other site 486410000854 active site 486410000855 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 486410000856 dimer interface [polypeptide binding]; other site 486410000857 substrate binding site [chemical binding]; other site 486410000858 ATP binding site [chemical binding]; other site 486410000859 Predicted membrane protein [Function unknown]; Region: COG4720 486410000860 hypothetical protein; Provisional; Region: PRK13690 486410000861 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 486410000862 Mechanosensitive ion channel; Region: MS_channel; pfam00924 486410000863 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 486410000864 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 486410000865 active site 486410000866 Ca binding site [ion binding]; other site 486410000867 catalytic site [active] 486410000868 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 486410000869 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 486410000870 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 486410000871 active site 486410000872 Ca binding site [ion binding]; other site 486410000873 catalytic site [active] 486410000874 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 486410000875 trigger factor; Provisional; Region: tig; PRK01490 486410000876 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 486410000877 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 486410000878 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 486410000879 CTP synthetase; Validated; Region: pyrG; PRK05380 486410000880 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 486410000881 Catalytic site [active] 486410000882 active site 486410000883 UTP binding site [chemical binding]; other site 486410000884 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 486410000885 active site 486410000886 putative oxyanion hole; other site 486410000887 catalytic triad [active] 486410000888 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 486410000889 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 486410000890 Histidine kinase; Region: His_kinase; pfam06580 486410000891 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 486410000892 ATP binding site [chemical binding]; other site 486410000893 Mg2+ binding site [ion binding]; other site 486410000894 G-X-G motif; other site 486410000895 two-component response regulator; Provisional; Region: PRK14084 486410000896 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 486410000897 active site 486410000898 phosphorylation site [posttranslational modification] 486410000899 intermolecular recognition site; other site 486410000900 dimerization interface [polypeptide binding]; other site 486410000901 LytTr DNA-binding domain; Region: LytTR; smart00850 486410000902 LrgA family; Region: LrgA; cl00608 486410000903 antiholin-like protein LrgB; Provisional; Region: PRK04288 486410000904 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 486410000905 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 486410000906 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 486410000907 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 486410000908 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 486410000909 intersubunit interface [polypeptide binding]; other site 486410000910 active site 486410000911 zinc binding site [ion binding]; other site 486410000912 Na+ binding site [ion binding]; other site 486410000913 potential frameshift: common BLAST hit: gi|28896770|ref|NP_803120.1| transposase 486410000914 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410000915 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410000916 Integrase core domain; Region: rve; pfam00665 486410000917 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 486410000918 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 486410000919 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 486410000920 DAK2 domain; Region: Dak2; pfam02734 486410000921 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 486410000922 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 486410000923 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 486410000924 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410000925 Walker A/P-loop; other site 486410000926 ATP binding site [chemical binding]; other site 486410000927 Q-loop/lid; other site 486410000928 ABC transporter signature motif; other site 486410000929 Walker B; other site 486410000930 D-loop; other site 486410000931 H-loop/switch region; other site 486410000932 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 486410000933 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 486410000934 substrate binding pocket [chemical binding]; other site 486410000935 membrane-bound complex binding site; other site 486410000936 hinge residues; other site 486410000937 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 486410000938 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 486410000939 dimer interface [polypeptide binding]; other site 486410000940 conserved gate region; other site 486410000941 putative PBP binding loops; other site 486410000942 ABC-ATPase subunit interface; other site 486410000943 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 486410000944 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 486410000945 adaptor protein; Provisional; Region: PRK02315 486410000946 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 486410000947 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 486410000948 Mg++ binding site [ion binding]; other site 486410000949 putative catalytic motif [active] 486410000950 substrate binding site [chemical binding]; other site 486410000951 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 486410000952 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 486410000953 Walker A/P-loop; other site 486410000954 ATP binding site [chemical binding]; other site 486410000955 Q-loop/lid; other site 486410000956 ABC transporter signature motif; other site 486410000957 Walker B; other site 486410000958 D-loop; other site 486410000959 H-loop/switch region; other site 486410000960 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 486410000961 FeS assembly protein SufD; Region: sufD; TIGR01981 486410000962 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 486410000963 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 486410000964 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 486410000965 catalytic residue [active] 486410000966 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 486410000967 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 486410000968 trimerization site [polypeptide binding]; other site 486410000969 active site 486410000970 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 486410000971 FeS assembly protein SufB; Region: sufB; TIGR01980 486410000972 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 486410000973 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 486410000974 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 486410000975 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 486410000976 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 486410000977 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 486410000978 peptide binding site [polypeptide binding]; other site 486410000979 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 486410000980 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 486410000981 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 486410000982 dimer interface [polypeptide binding]; other site 486410000983 conserved gate region; other site 486410000984 putative PBP binding loops; other site 486410000985 ABC-ATPase subunit interface; other site 486410000986 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 486410000987 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 486410000988 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 486410000989 dimer interface [polypeptide binding]; other site 486410000990 conserved gate region; other site 486410000991 putative PBP binding loops; other site 486410000992 ABC-ATPase subunit interface; other site 486410000993 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 486410000994 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 486410000995 Walker A/P-loop; other site 486410000996 ATP binding site [chemical binding]; other site 486410000997 Q-loop/lid; other site 486410000998 ABC transporter signature motif; other site 486410000999 Walker B; other site 486410001000 D-loop; other site 486410001001 H-loop/switch region; other site 486410001002 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 486410001003 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 486410001004 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 486410001005 Walker A/P-loop; other site 486410001006 ATP binding site [chemical binding]; other site 486410001007 Q-loop/lid; other site 486410001008 ABC transporter signature motif; other site 486410001009 Walker B; other site 486410001010 D-loop; other site 486410001011 H-loop/switch region; other site 486410001012 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 486410001013 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 486410001014 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 486410001015 active site 486410001016 motif I; other site 486410001017 motif II; other site 486410001018 GTPase YqeH; Provisional; Region: PRK13796 486410001019 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 486410001020 GTP/Mg2+ binding site [chemical binding]; other site 486410001021 G4 box; other site 486410001022 G5 box; other site 486410001023 G1 box; other site 486410001024 Switch I region; other site 486410001025 G2 box; other site 486410001026 G3 box; other site 486410001027 Switch II region; other site 486410001028 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 486410001029 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 486410001030 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 486410001031 active site 486410001032 (T/H)XGH motif; other site 486410001033 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 486410001034 Zn2+ binding site [ion binding]; other site 486410001035 Mg2+ binding site [ion binding]; other site 486410001036 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 486410001037 conserved cis-peptide bond; other site 486410001038 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 486410001039 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 486410001040 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 486410001041 S-adenosylmethionine binding site [chemical binding]; other site 486410001042 hypothetical protein; Provisional; Region: PRK13670 486410001043 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 486410001044 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 486410001045 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 486410001046 DNA binding residues [nucleotide binding] 486410001047 dimer interface [polypeptide binding]; other site 486410001048 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 486410001049 potential frameshift: common BLAST hit: gi|225871294|ref|YP_002747241.1| histidine triad protein 486410001050 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 486410001051 biotin synthase; Region: bioB; TIGR00433 486410001052 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 486410001053 FeS/SAM binding site; other site 486410001054 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 486410001055 hypothetical protein; Provisional; Region: PRK12378 486410001056 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 486410001057 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 486410001058 substrate binding pocket [chemical binding]; other site 486410001059 membrane-bound complex binding site; other site 486410001060 hinge residues; other site 486410001061 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 486410001062 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 486410001063 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 486410001064 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 486410001065 hypothetical protein; Provisional; Region: PRK06446 486410001066 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 486410001067 metal binding site [ion binding]; metal-binding site 486410001068 dimer interface [polypeptide binding]; other site 486410001069 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 486410001070 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 486410001071 Walker A/P-loop; other site 486410001072 ATP binding site [chemical binding]; other site 486410001073 Q-loop/lid; other site 486410001074 ABC transporter signature motif; other site 486410001075 Walker B; other site 486410001076 D-loop; other site 486410001077 H-loop/switch region; other site 486410001078 NIL domain; Region: NIL; pfam09383 486410001079 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 486410001080 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 486410001081 serine/threonine transporter SstT; Provisional; Region: PRK13628 486410001082 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 486410001083 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 486410001084 TrkA-N domain; Region: TrkA_N; pfam02254 486410001085 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 486410001086 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 486410001087 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 486410001088 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 486410001089 S-adenosylmethionine binding site [chemical binding]; other site 486410001090 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 486410001091 heat shock protein HtpX; Provisional; Region: PRK04897 486410001092 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 486410001093 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 486410001094 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 486410001095 active site 486410001096 phosphorylation site [posttranslational modification] 486410001097 intermolecular recognition site; other site 486410001098 dimerization interface [polypeptide binding]; other site 486410001099 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 486410001100 DNA binding site [nucleotide binding] 486410001101 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 486410001102 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 486410001103 dimerization interface [polypeptide binding]; other site 486410001104 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 486410001105 dimer interface [polypeptide binding]; other site 486410001106 phosphorylation site [posttranslational modification] 486410001107 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 486410001108 ATP binding site [chemical binding]; other site 486410001109 Mg2+ binding site [ion binding]; other site 486410001110 G-X-G motif; other site 486410001111 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 486410001112 ATP cone domain; Region: ATP-cone; pfam03477 486410001113 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 486410001114 primosomal protein DnaI; Reviewed; Region: PRK08939 486410001115 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 486410001116 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 486410001117 Walker A motif; other site 486410001118 ATP binding site [chemical binding]; other site 486410001119 Walker B motif; other site 486410001120 GTP-binding protein Der; Reviewed; Region: PRK00093 486410001121 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 486410001122 G1 box; other site 486410001123 GTP/Mg2+ binding site [chemical binding]; other site 486410001124 Switch I region; other site 486410001125 G2 box; other site 486410001126 Switch II region; other site 486410001127 G3 box; other site 486410001128 G4 box; other site 486410001129 G5 box; other site 486410001130 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 486410001131 G1 box; other site 486410001132 GTP/Mg2+ binding site [chemical binding]; other site 486410001133 Switch I region; other site 486410001134 G2 box; other site 486410001135 G3 box; other site 486410001136 Switch II region; other site 486410001137 G4 box; other site 486410001138 G5 box; other site 486410001139 SWIM zinc finger; Region: SWIM; pfam04434 486410001140 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 486410001141 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 486410001142 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 486410001143 ATP binding site [chemical binding]; other site 486410001144 putative Mg++ binding site [ion binding]; other site 486410001145 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 486410001146 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 486410001147 nucleotide binding region [chemical binding]; other site 486410001148 ATP-binding site [chemical binding]; other site 486410001149 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 486410001150 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 486410001151 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 486410001152 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 486410001153 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 486410001154 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 486410001155 Coenzyme A binding pocket [chemical binding]; other site 486410001156 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 486410001157 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 486410001158 dimerization interface [polypeptide binding]; other site 486410001159 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 486410001160 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 486410001161 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 486410001162 OxaA-like protein precursor; Provisional; Region: PRK02463 486410001163 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 486410001164 acylphosphatase; Provisional; Region: PRK14434 486410001165 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 486410001166 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 486410001167 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 486410001168 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 486410001169 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 486410001170 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 486410001171 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 486410001172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 486410001173 glutamate racemase; Provisional; Region: PRK00865 486410001174 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 486410001175 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 486410001176 active site 486410001177 dimerization interface [polypeptide binding]; other site 486410001178 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 486410001179 active site 486410001180 metal binding site [ion binding]; metal-binding site 486410001181 homotetramer interface [polypeptide binding]; other site 486410001182 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 486410001183 FOG: CBS domain [General function prediction only]; Region: COG0517 486410001184 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 486410001185 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 486410001186 active site 486410001187 catalytic residues [active] 486410001188 DNA binding site [nucleotide binding] 486410001189 Int/Topo IB signature motif; other site 486410001190 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 486410001191 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 486410001192 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 486410001193 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 486410001194 RNA binding surface [nucleotide binding]; other site 486410001195 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 486410001196 active site 486410001197 hypothetical protein; Validated; Region: PRK00041 486410001198 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 486410001199 Predicted membrane protein [Function unknown]; Region: COG3601 486410001200 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 486410001201 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 486410001202 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 486410001203 active site 486410001204 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 486410001205 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 486410001206 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 486410001207 Domain of unknown function DUF21; Region: DUF21; pfam01595 486410001208 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 486410001209 Transporter associated domain; Region: CorC_HlyC; pfam03471 486410001210 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 486410001211 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 486410001212 FeS/SAM binding site; other site 486410001213 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 486410001214 DHH family; Region: DHH; pfam01368 486410001215 DHHA2 domain; Region: DHHA2; pfam02833 486410001216 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 486410001217 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 486410001218 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 486410001219 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 486410001220 ABC-ATPase subunit interface; other site 486410001221 dimer interface [polypeptide binding]; other site 486410001222 putative PBP binding regions; other site 486410001223 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 486410001224 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 486410001225 ABC-ATPase subunit interface; other site 486410001226 dimer interface [polypeptide binding]; other site 486410001227 putative PBP binding regions; other site 486410001228 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 486410001229 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 486410001230 putative ligand binding residues [chemical binding]; other site 486410001231 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 486410001232 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 486410001233 Walker A/P-loop; other site 486410001234 ATP binding site [chemical binding]; other site 486410001235 Q-loop/lid; other site 486410001236 ABC transporter signature motif; other site 486410001237 Walker B; other site 486410001238 D-loop; other site 486410001239 H-loop/switch region; other site 486410001240 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 486410001241 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 486410001242 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 486410001243 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 486410001244 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 486410001245 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 486410001246 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410001247 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410001248 Integrase core domain; Region: rve; pfam00665 486410001249 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 486410001250 active site 486410001251 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 486410001252 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 486410001253 oligomer interface [polypeptide binding]; other site 486410001254 active site residues [active] 486410001255 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 486410001256 Protein of unknown function (DUF964); Region: DUF964; cl01483 486410001257 hypothetical protein; Provisional; Region: PRK02302 486410001258 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 486410001259 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 486410001260 putative ligand binding site [chemical binding]; other site 486410001261 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 486410001262 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 486410001263 TM-ABC transporter signature motif; other site 486410001264 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 486410001265 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 486410001266 TM-ABC transporter signature motif; other site 486410001267 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 486410001268 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 486410001269 Walker A/P-loop; other site 486410001270 ATP binding site [chemical binding]; other site 486410001271 Q-loop/lid; other site 486410001272 ABC transporter signature motif; other site 486410001273 Walker B; other site 486410001274 D-loop; other site 486410001275 H-loop/switch region; other site 486410001276 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 486410001277 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 486410001278 Walker A/P-loop; other site 486410001279 ATP binding site [chemical binding]; other site 486410001280 Q-loop/lid; other site 486410001281 ABC transporter signature motif; other site 486410001282 Walker B; other site 486410001283 D-loop; other site 486410001284 H-loop/switch region; other site 486410001285 FOG: CBS domain [General function prediction only]; Region: COG0517 486410001286 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 486410001287 FOG: CBS domain [General function prediction only]; Region: COG0517 486410001288 thymidylate kinase; Validated; Region: tmk; PRK00698 486410001289 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 486410001290 TMP-binding site; other site 486410001291 ATP-binding site [chemical binding]; other site 486410001292 DNA polymerase III subunit delta'; Validated; Region: PRK07276 486410001293 DNA polymerase III subunit delta'; Validated; Region: PRK08485 486410001294 PSP1 C-terminal conserved region; Region: PSP1; cl00770 486410001295 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 486410001296 Predicted methyltransferases [General function prediction only]; Region: COG0313 486410001297 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 486410001298 putative SAM binding site [chemical binding]; other site 486410001299 putative homodimer interface [polypeptide binding]; other site 486410001300 CutC family; Region: CutC; pfam03932 486410001301 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 486410001302 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 486410001303 catalytic residue [active] 486410001304 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 486410001305 Coenzyme A binding pocket [chemical binding]; other site 486410001306 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 486410001307 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 486410001308 DNA binding site [nucleotide binding] 486410001309 active site 486410001310 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 486410001311 ArsC family; Region: ArsC; pfam03960 486410001312 putative ArsC-like catalytic residues; other site 486410001313 putative TRX-like catalytic residues [active] 486410001314 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 486410001315 dimer interface [polypeptide binding]; other site 486410001316 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 486410001317 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 486410001318 Transcriptional regulators [Transcription]; Region: PurR; COG1609 486410001319 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 486410001320 DNA binding site [nucleotide binding] 486410001321 domain linker motif; other site 486410001322 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 486410001323 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 486410001324 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 486410001325 active site 486410001326 motif I; other site 486410001327 motif II; other site 486410001328 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 486410001329 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 486410001330 active site 486410001331 putative catalytic site [active] 486410001332 DNA binding site [nucleotide binding] 486410001333 putative phosphate binding site [ion binding]; other site 486410001334 metal binding site A [ion binding]; metal-binding site 486410001335 AP binding site [nucleotide binding]; other site 486410001336 metal binding site B [ion binding]; metal-binding site 486410001337 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 486410001338 Predicted integral membrane protein [Function unknown]; Region: COG5658 486410001339 SdpI/YhfL protein family; Region: SdpI; pfam13630 486410001340 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 486410001341 L-lactate permease; Region: Lactate_perm; cl00701 486410001342 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 486410001343 L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. This family occurs in both prokaryotes...; Region: LOX_like_FMN; cd04737 486410001344 teramer interface [polypeptide binding]; other site 486410001345 active site 486410001346 FMN binding site [chemical binding]; other site 486410001347 catalytic residues [active] 486410001348 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 486410001349 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 486410001350 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 486410001351 putative active site [active] 486410001352 potential frameshift: common BLAST hit: gi|50913713|ref|YP_059685.1| lactocepin 486410001353 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 486410001354 putative integrin binding motif; other site 486410001355 PA/protease domain interface [polypeptide binding]; other site 486410001356 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 486410001357 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 486410001358 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 486410001359 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 486410001360 Predicted membrane protein [Function unknown]; Region: COG3619 486410001361 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 486410001362 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 486410001363 active site 486410001364 HIGH motif; other site 486410001365 KMSKS motif; other site 486410001366 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 486410001367 tRNA binding surface [nucleotide binding]; other site 486410001368 anticodon binding site; other site 486410001369 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 486410001370 dimer interface [polypeptide binding]; other site 486410001371 putative tRNA-binding site [nucleotide binding]; other site 486410001372 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 486410001373 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 486410001374 dimer interface [polypeptide binding]; other site 486410001375 putative radical transfer pathway; other site 486410001376 diiron center [ion binding]; other site 486410001377 tyrosyl radical; other site 486410001378 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 486410001379 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07187 486410001380 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 486410001381 Class I ribonucleotide reductase; Region: RNR_I; cd01679 486410001382 active site 486410001383 dimer interface [polypeptide binding]; other site 486410001384 catalytic residues [active] 486410001385 effector binding site; other site 486410001386 R2 peptide binding site; other site 486410001387 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 486410001388 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410001389 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 486410001390 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 486410001391 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 486410001392 classical (c) SDRs; Region: SDR_c; cd05233 486410001393 NAD(P) binding site [chemical binding]; other site 486410001394 active site 486410001395 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 486410001396 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 486410001397 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 486410001398 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 486410001399 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 486410001400 putative substrate translocation pore; other site 486410001401 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 486410001402 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 486410001403 Substrate binding site; other site 486410001404 Mg++ binding site; other site 486410001405 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 486410001406 active site 486410001407 substrate binding site [chemical binding]; other site 486410001408 CoA binding site [chemical binding]; other site 486410001409 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 486410001410 dimer interface [polypeptide binding]; other site 486410001411 ADP-ribose binding site [chemical binding]; other site 486410001412 active site 486410001413 nudix motif; other site 486410001414 metal binding site [ion binding]; metal-binding site 486410001415 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 486410001416 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 486410001417 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 486410001418 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 486410001419 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 486410001420 FeoA domain; Region: FeoA; pfam04023 486410001421 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 486410001422 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 486410001423 metal binding site [ion binding]; metal-binding site 486410001424 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 486410001425 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 486410001426 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 486410001427 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 486410001428 ABC-ATPase subunit interface; other site 486410001429 dimer interface [polypeptide binding]; other site 486410001430 putative PBP binding regions; other site 486410001431 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 486410001432 active site 486410001433 Protein of unknown function (DUF1673); Region: DUF1673; pfam07895 486410001434 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 486410001435 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 486410001436 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 486410001437 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 486410001438 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410001439 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410001440 Integrase core domain; Region: rve; pfam00665 486410001441 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 486410001442 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 486410001443 23S rRNA interface [nucleotide binding]; other site 486410001444 L7/L12 interface [polypeptide binding]; other site 486410001445 putative thiostrepton binding site; other site 486410001446 L25 interface [polypeptide binding]; other site 486410001447 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 486410001448 mRNA/rRNA interface [nucleotide binding]; other site 486410001449 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 486410001450 putative nucleotide binding site [chemical binding]; other site 486410001451 uridine monophosphate binding site [chemical binding]; other site 486410001452 homohexameric interface [polypeptide binding]; other site 486410001453 ribosome recycling factor; Reviewed; Region: frr; PRK00083 486410001454 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 486410001455 hinge region; other site 486410001456 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 486410001457 S1 domain; Region: S1_2; pfam13509 486410001458 methionine sulfoxide reductase A; Provisional; Region: PRK14054 486410001459 hypothetical protein; Provisional; Region: PRK13672 486410001460 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 486410001461 Myosin-crossreactive antigen [Function unknown]; Region: COG4716 486410001462 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 486410001463 PhoH-like protein; Region: PhoH; pfam02562 486410001464 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 486410001465 putative uracil binding site [chemical binding]; other site 486410001466 putative active site [active] 486410001467 metal-binding heat shock protein; Provisional; Region: PRK00016 486410001468 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 486410001469 GTPase Era; Reviewed; Region: era; PRK00089 486410001470 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 486410001471 G1 box; other site 486410001472 GTP/Mg2+ binding site [chemical binding]; other site 486410001473 Switch I region; other site 486410001474 G2 box; other site 486410001475 Switch II region; other site 486410001476 G3 box; other site 486410001477 G4 box; other site 486410001478 G5 box; other site 486410001479 KH domain; Region: KH_2; pfam07650 486410001480 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 486410001481 nudix motif; other site 486410001482 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_C39B; cd02418 486410001483 putative active site [active] 486410001484 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410001485 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410001486 Walker A/P-loop; other site 486410001487 ATP binding site [chemical binding]; other site 486410001488 Q-loop/lid; other site 486410001489 ABC transporter signature motif; other site 486410001490 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 486410001491 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 486410001492 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 486410001493 active site 486410001494 phosphorylation site [posttranslational modification] 486410001495 intermolecular recognition site; other site 486410001496 dimerization interface [polypeptide binding]; other site 486410001497 LytTr DNA-binding domain; Region: LytTR; pfam04397 486410001498 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 486410001499 COMC family; Region: ComC; pfam03047 486410001500 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 486410001501 HlyD family secretion protein; Region: HlyD_3; pfam13437 486410001502 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_C39B; cd02418 486410001503 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 486410001504 putative active site [active] 486410001505 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410001506 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410001507 Walker A/P-loop; other site 486410001508 ATP binding site [chemical binding]; other site 486410001509 Q-loop/lid; other site 486410001510 ABC transporter signature motif; other site 486410001511 Walker B; other site 486410001512 D-loop; other site 486410001513 H-loop/switch region; other site 486410001514 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410001515 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410001516 Integrase core domain; Region: rve; pfam00665 486410001517 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 486410001518 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 486410001519 non-specific DNA binding site [nucleotide binding]; other site 486410001520 salt bridge; other site 486410001521 sequence-specific DNA binding site [nucleotide binding]; other site 486410001522 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 486410001523 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 486410001524 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 486410001525 DNA binding site [nucleotide binding] 486410001526 catalytic residue [active] 486410001527 H2TH interface [polypeptide binding]; other site 486410001528 putative catalytic residues [active] 486410001529 turnover-facilitating residue; other site 486410001530 intercalation triad [nucleotide binding]; other site 486410001531 8OG recognition residue [nucleotide binding]; other site 486410001532 putative reading head residues; other site 486410001533 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 486410001534 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 486410001535 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 486410001536 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 486410001537 CoA-binding site [chemical binding]; other site 486410001538 ATP-binding [chemical binding]; other site 486410001539 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 486410001540 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 486410001541 Walker A/P-loop; other site 486410001542 ATP binding site [chemical binding]; other site 486410001543 Q-loop/lid; other site 486410001544 ABC transporter signature motif; other site 486410001545 Walker B; other site 486410001546 D-loop; other site 486410001547 H-loop/switch region; other site 486410001548 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 486410001549 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 486410001550 Walker A motif; other site 486410001551 ATP binding site [chemical binding]; other site 486410001552 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 486410001553 putative substrate translocation pore; other site 486410001554 Major Facilitator Superfamily; Region: MFS_1; pfam07690 486410001555 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 486410001556 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 486410001557 ribonuclease R; Region: RNase_R; TIGR02063 486410001558 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 486410001559 RNB domain; Region: RNB; pfam00773 486410001560 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 486410001561 RNA binding site [nucleotide binding]; other site 486410001562 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 486410001563 SmpB-tmRNA interface; other site 486410001564 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 486410001565 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 486410001566 Ligand binding site; other site 486410001567 Putative Catalytic site; other site 486410001568 DXD motif; other site 486410001569 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 486410001570 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 486410001571 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 486410001572 dimer interface [polypeptide binding]; other site 486410001573 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 486410001574 active site 486410001575 metal binding site [ion binding]; metal-binding site 486410001576 glutathione binding site [chemical binding]; other site 486410001577 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 486410001578 dimer interface [polypeptide binding]; other site 486410001579 FMN binding site [chemical binding]; other site 486410001580 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 486410001581 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 486410001582 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 486410001583 active site 486410001584 catabolite control protein A; Region: ccpA; TIGR01481 486410001585 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 486410001586 DNA binding site [nucleotide binding] 486410001587 domain linker motif; other site 486410001588 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 486410001589 dimerization interface [polypeptide binding]; other site 486410001590 effector binding site; other site 486410001591 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 486410001592 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 486410001593 active site 486410001594 Na/Ca binding site [ion binding]; other site 486410001595 catalytic site [active] 486410001596 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 486410001597 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 486410001598 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 486410001599 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 486410001600 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 486410001601 putative ADP-binding pocket [chemical binding]; other site 486410001602 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 486410001603 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 486410001604 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 486410001605 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 486410001606 active site 486410001607 dimer interface [polypeptide binding]; other site 486410001608 motif 1; other site 486410001609 motif 2; other site 486410001610 motif 3; other site 486410001611 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 486410001612 anticodon binding site; other site 486410001613 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 486410001614 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410001615 Walker A/P-loop; other site 486410001616 ATP binding site [chemical binding]; other site 486410001617 Q-loop/lid; other site 486410001618 ABC transporter signature motif; other site 486410001619 Walker B; other site 486410001620 D-loop; other site 486410001621 H-loop/switch region; other site 486410001622 potential frameshift: common BLAST hit: gi|94991945|ref|YP_600044.1| daunorubicin resistance transmembrane protein 486410001623 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 486410001624 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 486410001625 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 486410001626 DhaKLM operon coactivator DhaQ; Provisional; Region: PRK14483 486410001627 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 486410001628 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 486410001629 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 486410001630 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 486410001631 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 486410001632 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 486410001633 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 486410001634 amphipathic channel; other site 486410001635 Asn-Pro-Ala signature motifs; other site 486410001636 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 486410001637 active site 2 [active] 486410001638 active site 1 [active] 486410001639 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 486410001640 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 486410001641 dimer interface [polypeptide binding]; other site 486410001642 active site 486410001643 D-alanine--poly(phosphoribitol) ligase, subunit 1; Region: D-ala-DACP-lig; TIGR01734 486410001644 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 486410001645 AMP binding site [chemical binding]; other site 486410001646 active site 486410001647 acyl-activating enzyme (AAE) consensus motif; other site 486410001648 CoA binding site [chemical binding]; other site 486410001649 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 486410001650 potential frameshift: common BLAST hit: gi|222152717|ref|YP_002561893.1| amino acid ABC transporter, permease protein 486410001651 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 486410001652 putative PBP binding loops; other site 486410001653 dimer interface [polypeptide binding]; other site 486410001654 ABC-ATPase subunit interface; other site 486410001655 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 486410001656 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 486410001657 dimer interface [polypeptide binding]; other site 486410001658 conserved gate region; other site 486410001659 putative PBP binding loops; other site 486410001660 ABC-ATPase subunit interface; other site 486410001661 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 486410001662 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 486410001663 substrate binding pocket [chemical binding]; other site 486410001664 membrane-bound complex binding site; other site 486410001665 hinge residues; other site 486410001666 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 486410001667 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 486410001668 Walker A/P-loop; other site 486410001669 ATP binding site [chemical binding]; other site 486410001670 Q-loop/lid; other site 486410001671 ABC transporter signature motif; other site 486410001672 Walker B; other site 486410001673 D-loop; other site 486410001674 H-loop/switch region; other site 486410001675 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 486410001676 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 486410001677 active site 486410001678 phosphorylation site [posttranslational modification] 486410001679 intermolecular recognition site; other site 486410001680 dimerization interface [polypeptide binding]; other site 486410001681 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 486410001682 DNA binding site [nucleotide binding] 486410001683 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 486410001684 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 486410001685 putative active site [active] 486410001686 heme pocket [chemical binding]; other site 486410001687 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 486410001688 dimer interface [polypeptide binding]; other site 486410001689 phosphorylation site [posttranslational modification] 486410001690 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 486410001691 ATP binding site [chemical binding]; other site 486410001692 Mg2+ binding site [ion binding]; other site 486410001693 G-X-G motif; other site 486410001694 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 486410001695 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 486410001696 ribonuclease III; Reviewed; Region: rnc; PRK00102 486410001697 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 486410001698 dimerization interface [polypeptide binding]; other site 486410001699 active site 486410001700 metal binding site [ion binding]; metal-binding site 486410001701 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 486410001702 dsRNA binding site [nucleotide binding]; other site 486410001703 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 486410001704 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 486410001705 Walker A/P-loop; other site 486410001706 ATP binding site [chemical binding]; other site 486410001707 Q-loop/lid; other site 486410001708 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 486410001709 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 486410001710 ABC transporter signature motif; other site 486410001711 Walker B; other site 486410001712 D-loop; other site 486410001713 H-loop/switch region; other site 486410001714 potential frameshift: common BLAST hit: gi|22538188|ref|NP_689039.1| serine protease 486410001715 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 486410001716 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 486410001717 potential frameshift: common BLAST hit: gi|139474214|ref|YP_001128930.1| haloacid dehalogenase-like hydrolase 486410001718 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 486410001719 active site 486410001720 motif I; other site 486410001721 motif II; other site 486410001722 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 486410001723 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 486410001724 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 486410001725 active site 486410001726 motif I; other site 486410001727 motif II; other site 486410001728 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 486410001729 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 486410001730 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 486410001731 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 486410001732 P loop; other site 486410001733 GTP binding site [chemical binding]; other site 486410001734 potential frameshift: common BLAST hit: gi|209559036|ref|YP_002285508.1| drug resistance protein 486410001735 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 486410001736 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 486410001737 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 486410001738 transcriptional antiterminator BglG; Provisional; Region: PRK09772 486410001739 CAT RNA binding domain; Region: CAT_RBD; smart01061 486410001740 PRD domain; Region: PRD; pfam00874 486410001741 PRD domain; Region: PRD; pfam00874 486410001742 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 486410001743 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 486410001744 active site turn [active] 486410001745 phosphorylation site [posttranslational modification] 486410001746 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 486410001747 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 486410001748 HPr interaction site; other site 486410001749 glycerol kinase (GK) interaction site [polypeptide binding]; other site 486410001750 active site 486410001751 phosphorylation site [posttranslational modification] 486410001752 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 486410001753 beta-galactosidase; Region: BGL; TIGR03356 486410001754 Predicted membrane protein [Function unknown]; Region: COG3689 486410001755 Predicted permeases [General function prediction only]; Region: COG0701 486410001756 Uncharacterized conserved protein [Function unknown]; Region: COG3542 486410001757 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 486410001758 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 486410001759 active site 486410001760 phosphorylation site [posttranslational modification] 486410001761 intermolecular recognition site; other site 486410001762 dimerization interface [polypeptide binding]; other site 486410001763 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 486410001764 DNA binding site [nucleotide binding] 486410001765 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 486410001766 dimer interface [polypeptide binding]; other site 486410001767 phosphorylation site [posttranslational modification] 486410001768 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 486410001769 ATP binding site [chemical binding]; other site 486410001770 G-X-G motif; other site 486410001771 PBP superfamily domain; Region: PBP_like_2; cl17296 486410001772 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 486410001773 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 486410001774 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 486410001775 dimer interface [polypeptide binding]; other site 486410001776 conserved gate region; other site 486410001777 putative PBP binding loops; other site 486410001778 ABC-ATPase subunit interface; other site 486410001779 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 486410001780 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 486410001781 dimer interface [polypeptide binding]; other site 486410001782 conserved gate region; other site 486410001783 putative PBP binding loops; other site 486410001784 ABC-ATPase subunit interface; other site 486410001785 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 486410001786 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 486410001787 Walker A/P-loop; other site 486410001788 ATP binding site [chemical binding]; other site 486410001789 Q-loop/lid; other site 486410001790 ABC transporter signature motif; other site 486410001791 Walker B; other site 486410001792 D-loop; other site 486410001793 H-loop/switch region; other site 486410001794 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 486410001795 PhoU domain; Region: PhoU; pfam01895 486410001796 PhoU domain; Region: PhoU; pfam01895 486410001797 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 486410001798 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 486410001799 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 486410001800 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 486410001801 RNA binding site [nucleotide binding]; other site 486410001802 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 486410001803 hypothetical protein; Provisional; Region: PRK04351 486410001804 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 486410001805 HPr kinase/phosphorylase; Provisional; Region: PRK05428 486410001806 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 486410001807 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 486410001808 Hpr binding site; other site 486410001809 active site 486410001810 homohexamer subunit interaction site [polypeptide binding]; other site 486410001811 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 486410001812 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 486410001813 YtxH-like protein; Region: YtxH; pfam12732 486410001814 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 486410001815 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 486410001816 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 486410001817 Peptidase family U32; Region: Peptidase_U32; pfam01136 486410001818 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 486410001819 Peptidase family U32; Region: Peptidase_U32; pfam01136 486410001820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4443 486410001821 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 486410001822 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 486410001823 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 486410001824 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 486410001825 dimer interface [polypeptide binding]; other site 486410001826 putative anticodon binding site; other site 486410001827 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 486410001828 motif 1; other site 486410001829 active site 486410001830 motif 2; other site 486410001831 motif 3; other site 486410001832 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 486410001833 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 486410001834 motif II; other site 486410001835 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 486410001836 catalytic core [active] 486410001837 hypothetical protein; Provisional; Region: PRK11770 486410001838 Domain of unknown function (DUF307); Region: DUF307; pfam03733 486410001839 Domain of unknown function (DUF307); Region: DUF307; pfam03733 486410001840 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 486410001841 putative deacylase active site [active] 486410001842 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; cl17491 486410001843 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 486410001844 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 486410001845 active site 486410001846 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 486410001847 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 486410001848 catalytic residues [active] 486410001849 dimer interface [polypeptide binding]; other site 486410001850 oligoendopeptidase F; Region: pepF; TIGR00181 486410001851 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 486410001852 Zn binding site [ion binding]; other site 486410001853 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 486410001854 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 486410001855 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 486410001856 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 486410001857 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 486410001858 DNA binding residues [nucleotide binding] 486410001859 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 486410001860 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 486410001861 elongation factor Tu; Reviewed; Region: PRK00049 486410001862 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 486410001863 G1 box; other site 486410001864 GEF interaction site [polypeptide binding]; other site 486410001865 GTP/Mg2+ binding site [chemical binding]; other site 486410001866 Switch I region; other site 486410001867 G2 box; other site 486410001868 G3 box; other site 486410001869 Switch II region; other site 486410001870 G4 box; other site 486410001871 G5 box; other site 486410001872 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 486410001873 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 486410001874 Antibiotic Binding Site [chemical binding]; other site 486410001875 N-glycosyltransferase; Provisional; Region: PRK11204 486410001876 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 486410001877 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 486410001878 DXD motif; other site 486410001879 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 486410001880 triosephosphate isomerase; Provisional; Region: PRK14567 486410001881 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 486410001882 substrate binding site [chemical binding]; other site 486410001883 dimer interface [polypeptide binding]; other site 486410001884 catalytic triad [active] 486410001885 putative transposase OrfB; Reviewed; Region: PHA02517 486410001886 HTH-like domain; Region: HTH_21; pfam13276 486410001887 Integrase core domain; Region: rve; pfam00665 486410001888 Integrase core domain; Region: rve_2; pfam13333 486410001889 HTH-like domain; Region: HTH_21; pfam13276 486410001890 Integrase core domain; Region: rve; pfam00665 486410001891 Integrase core domain; Region: rve_3; cl15866 486410001892 Transposase; Region: HTH_Tnp_1; pfam01527 486410001893 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 486410001894 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 486410001895 FemAB family; Region: FemAB; pfam02388 486410001896 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 486410001897 FemAB family; Region: FemAB; pfam02388 486410001898 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 486410001899 sugar phosphate phosphatase; Provisional; Region: PRK10513 486410001900 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 486410001901 motif II; other site 486410001902 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 486410001903 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 486410001904 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 486410001905 Zn2+ binding site [ion binding]; other site 486410001906 Mg2+ binding site [ion binding]; other site 486410001907 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 486410001908 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 486410001909 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 486410001910 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 486410001911 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 486410001912 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 486410001913 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 486410001914 Transcriptional regulators [Transcription]; Region: PurR; COG1609 486410001915 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 486410001916 DNA binding site [nucleotide binding] 486410001917 domain linker motif; other site 486410001918 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 486410001919 putative dimerization interface [polypeptide binding]; other site 486410001920 putative ligand binding site [chemical binding]; other site 486410001921 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 486410001922 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 486410001923 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 486410001924 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 486410001925 active site 486410001926 phosphorylation site [posttranslational modification] 486410001927 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 486410001928 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 486410001929 active pocket/dimerization site; other site 486410001930 active site 486410001931 phosphorylation site [posttranslational modification] 486410001932 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 486410001933 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 486410001934 NADP binding site [chemical binding]; other site 486410001935 homodimer interface [polypeptide binding]; other site 486410001936 active site 486410001937 hypothetical protein; Provisional; Region: PRK09273 486410001938 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 486410001939 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 486410001940 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 486410001941 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 486410001942 substrate binding site [chemical binding]; other site 486410001943 ATP binding site [chemical binding]; other site 486410001944 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 486410001945 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 486410001946 active site 486410001947 intersubunit interface [polypeptide binding]; other site 486410001948 catalytic residue [active] 486410001949 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 486410001950 substrate binding site [chemical binding]; other site 486410001951 catalytic residues [active] 486410001952 putative phosphoesterase; Region: acc_ester; TIGR03729 486410001953 putative phosphoesterase; Region: acc_ester; TIGR03729 486410001954 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 486410001955 Integrase core domain; Region: rve; pfam00665 486410001956 Integrase core domain; Region: rve_3; cl15866 486410001957 Transposase; Region: HTH_Tnp_1; pfam01527 486410001958 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 486410001959 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 486410001960 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 486410001961 motif II; other site 486410001962 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 486410001963 epoxyqueuosine reductase; Region: TIGR00276 486410001964 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 486410001965 peptide chain release factor 2; Validated; Region: prfB; PRK00578 486410001966 PCRF domain; Region: PCRF; pfam03462 486410001967 RF-1 domain; Region: RF-1; pfam00472 486410001968 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 486410001969 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410001970 Walker A/P-loop; other site 486410001971 ATP binding site [chemical binding]; other site 486410001972 Q-loop/lid; other site 486410001973 ABC transporter signature motif; other site 486410001974 Walker B; other site 486410001975 D-loop; other site 486410001976 H-loop/switch region; other site 486410001977 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 486410001978 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 486410001979 FtsX-like permease family; Region: FtsX; pfam02687 486410001980 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 486410001981 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 486410001982 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 486410001983 active site 486410001984 catalytic site [active] 486410001985 substrate binding site [chemical binding]; other site 486410001986 DEAD/DEAH box helicase; Region: DEAD; pfam00270 486410001987 ATP binding site [chemical binding]; other site 486410001988 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 486410001989 aspartate aminotransferase; Provisional; Region: PRK05764 486410001990 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 486410001991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 486410001992 homodimer interface [polypeptide binding]; other site 486410001993 catalytic residue [active] 486410001994 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 486410001995 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 486410001996 putative dimer interface [polypeptide binding]; other site 486410001997 putative anticodon binding site; other site 486410001998 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 486410001999 homodimer interface [polypeptide binding]; other site 486410002000 motif 1; other site 486410002001 motif 2; other site 486410002002 active site 486410002003 motif 3; other site 486410002004 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 486410002005 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 486410002006 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 486410002007 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 486410002008 dimer interface [polypeptide binding]; other site 486410002009 phosphate binding site [ion binding]; other site 486410002010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 486410002011 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 486410002012 Peptidase family C69; Region: Peptidase_C69; pfam03577 486410002013 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 486410002014 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 486410002015 metal binding site [ion binding]; metal-binding site 486410002016 YodA lipocalin-like domain; Region: YodA; pfam09223 486410002017 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 486410002018 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 486410002019 DNA-binding site [nucleotide binding]; DNA binding site 486410002020 UTRA domain; Region: UTRA; pfam07702 486410002021 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 486410002022 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 486410002023 dimer interface [polypeptide binding]; other site 486410002024 active site 486410002025 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 486410002026 putative active site [active] 486410002027 Class I aldolases; Region: Aldolase_Class_I; cl17187 486410002028 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 486410002029 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 486410002030 DNA-binding site [nucleotide binding]; DNA binding site 486410002031 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 486410002032 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 486410002033 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 486410002034 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 486410002035 active site 486410002036 phosphorylation site [posttranslational modification] 486410002037 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 486410002038 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 486410002039 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 486410002040 active pocket/dimerization site; other site 486410002041 active site 486410002042 phosphorylation site [posttranslational modification] 486410002043 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 486410002044 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410002045 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410002046 Integrase core domain; Region: rve; pfam00665 486410002047 potential frameshift: common BLAST hit: gi|28896770|ref|NP_803120.1| transposase 486410002048 DNA-binding interface [nucleotide binding]; DNA binding site 486410002049 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410002050 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410002051 Integrase core domain; Region: rve; pfam00665 486410002052 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 486410002053 DHH family; Region: DHH; pfam01368 486410002054 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 486410002055 putative S-transferase; Provisional; Region: PRK11752 486410002056 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 486410002057 C-terminal domain interface [polypeptide binding]; other site 486410002058 GSH binding site (G-site) [chemical binding]; other site 486410002059 dimer interface [polypeptide binding]; other site 486410002060 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 486410002061 N-terminal domain interface [polypeptide binding]; other site 486410002062 dimer interface [polypeptide binding]; other site 486410002063 substrate binding pocket (H-site) [chemical binding]; other site 486410002064 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 486410002065 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 486410002066 active site 486410002067 flavodoxin; Validated; Region: PRK07308 486410002068 hypothetical protein; Provisional; Region: PRK07248 486410002069 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 486410002070 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 486410002071 Cl- selectivity filter; other site 486410002072 Cl- binding residues [ion binding]; other site 486410002073 pore gating glutamate residue; other site 486410002074 dimer interface [polypeptide binding]; other site 486410002075 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 486410002076 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 486410002077 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 486410002078 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 486410002079 motif II; other site 486410002080 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 486410002081 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 486410002082 Mg2+ binding site [ion binding]; other site 486410002083 G-X-G motif; other site 486410002084 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 486410002085 anchoring element; other site 486410002086 dimer interface [polypeptide binding]; other site 486410002087 ATP binding site [chemical binding]; other site 486410002088 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 486410002089 active site 486410002090 putative metal-binding site [ion binding]; other site 486410002091 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 486410002092 septation ring formation regulator EzrA; Provisional; Region: PRK04778 486410002093 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 486410002094 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 486410002095 motif II; other site 486410002096 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 486410002097 enolase; Provisional; Region: eno; PRK00077 486410002098 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 486410002099 dimer interface [polypeptide binding]; other site 486410002100 metal binding site [ion binding]; metal-binding site 486410002101 substrate binding pocket [chemical binding]; other site 486410002102 bacteriocin protoxin, streptolysin S family; Region: streptolysinS; TIGR03602 486410002103 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 486410002104 putative FMN binding site [chemical binding]; other site 486410002105 NADPH bind site [chemical binding]; other site 486410002106 thiazole/oxazole-forming peptide maturase, SagC family component; Region: cyclo_dehy_ocin; TIGR03603 486410002107 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 486410002108 YcaO-like family; Region: YcaO; pfam02624 486410002109 CAAX protease self-immunity; Region: Abi; pfam02517 486410002110 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 486410002111 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410002112 Walker A/P-loop; other site 486410002113 ATP binding site [chemical binding]; other site 486410002114 Q-loop/lid; other site 486410002115 ABC transporter signature motif; other site 486410002116 Walker B; other site 486410002117 D-loop; other site 486410002118 H-loop/switch region; other site 486410002119 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 486410002120 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 486410002121 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 486410002122 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 486410002123 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 486410002124 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 486410002125 generic binding surface II; other site 486410002126 generic binding surface I; other site 486410002127 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 486410002128 generic binding surface II; other site 486410002129 generic binding surface I; other site 486410002130 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 486410002131 putative catalytic site [active] 486410002132 putative metal binding site [ion binding]; other site 486410002133 putative phosphate binding site [ion binding]; other site 486410002134 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 486410002135 Predicted membrane protein [Function unknown]; Region: COG4708 486410002136 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 486410002137 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 486410002138 nucleotide binding pocket [chemical binding]; other site 486410002139 K-X-D-G motif; other site 486410002140 catalytic site [active] 486410002141 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 486410002142 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 486410002143 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 486410002144 Dimer interface [polypeptide binding]; other site 486410002145 BRCT sequence motif; other site 486410002146 putative lipid kinase; Reviewed; Region: PRK13055 486410002147 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 486410002148 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 486410002149 carbohydrate binding site [chemical binding]; other site 486410002150 pullulanase, type I; Region: pulA_typeI; TIGR02104 486410002151 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 486410002152 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 486410002153 Ca binding site [ion binding]; other site 486410002154 active site 486410002155 catalytic site [active] 486410002156 glycogen branching enzyme; Provisional; Region: PRK12313 486410002157 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 486410002158 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 486410002159 active site 486410002160 catalytic site [active] 486410002161 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 486410002162 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 486410002163 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 486410002164 ligand binding site; other site 486410002165 oligomer interface; other site 486410002166 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 486410002167 dimer interface [polypeptide binding]; other site 486410002168 N-terminal domain interface [polypeptide binding]; other site 486410002169 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 486410002170 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 486410002171 active site 486410002172 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 486410002173 dimer interface [polypeptide binding]; other site 486410002174 N-terminal domain interface [polypeptide binding]; other site 486410002175 sulfate 1 binding site; other site 486410002176 glycogen synthase; Provisional; Region: glgA; PRK00654 486410002177 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 486410002178 ADP-binding pocket [chemical binding]; other site 486410002179 homodimer interface [polypeptide binding]; other site 486410002180 F0F1 ATP synthase subunit C; Provisional; Region: PRK13467 486410002181 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 486410002182 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 486410002183 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 486410002184 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 486410002185 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 486410002186 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 486410002187 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 486410002188 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 486410002189 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 486410002190 beta subunit interaction interface [polypeptide binding]; other site 486410002191 Walker A motif; other site 486410002192 ATP binding site [chemical binding]; other site 486410002193 Walker B motif; other site 486410002194 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 486410002195 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 486410002196 core domain interface [polypeptide binding]; other site 486410002197 delta subunit interface [polypeptide binding]; other site 486410002198 epsilon subunit interface [polypeptide binding]; other site 486410002199 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 486410002200 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 486410002201 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 486410002202 alpha subunit interaction interface [polypeptide binding]; other site 486410002203 Walker A motif; other site 486410002204 ATP binding site [chemical binding]; other site 486410002205 Walker B motif; other site 486410002206 inhibitor binding site; inhibition site 486410002207 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 486410002208 ATP synthase CF1 epsilon subunit; Region: atpE; CHL00063 486410002209 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 486410002210 gamma subunit interface [polypeptide binding]; other site 486410002211 epsilon subunit interface [polypeptide binding]; other site 486410002212 LBP interface [polypeptide binding]; other site 486410002213 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 486410002214 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 486410002215 hinge; other site 486410002216 active site 486410002217 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 486410002218 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 486410002219 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 486410002220 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 486410002221 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 486410002222 dimer interface [polypeptide binding]; other site 486410002223 motif 1; other site 486410002224 active site 486410002225 motif 2; other site 486410002226 motif 3; other site 486410002227 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 486410002228 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 486410002229 putative tRNA-binding site [nucleotide binding]; other site 486410002230 B3/4 domain; Region: B3_4; pfam03483 486410002231 tRNA synthetase B5 domain; Region: B5; smart00874 486410002232 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 486410002233 dimer interface [polypeptide binding]; other site 486410002234 motif 1; other site 486410002235 motif 3; other site 486410002236 motif 2; other site 486410002237 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 486410002238 OsmC-like protein; Region: OsmC; pfam02566 486410002239 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 486410002240 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 486410002241 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 486410002242 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 486410002243 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 486410002244 Walker A/P-loop; other site 486410002245 ATP binding site [chemical binding]; other site 486410002246 Q-loop/lid; other site 486410002247 ABC transporter signature motif; other site 486410002248 Walker B; other site 486410002249 D-loop; other site 486410002250 H-loop/switch region; other site 486410002251 Predicted metalloprotease [General function prediction only]; Region: COG2321 486410002252 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 486410002253 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 486410002254 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 486410002255 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 486410002256 Part of AAA domain; Region: AAA_19; pfam13245 486410002257 Family description; Region: UvrD_C_2; pfam13538 486410002258 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 486410002259 transaminase; Validated; Region: PRK07324 486410002260 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 486410002261 pyridoxal 5'-phosphate binding site [chemical binding]; other site 486410002262 homodimer interface [polypeptide binding]; other site 486410002263 catalytic residue [active] 486410002264 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 486410002265 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 486410002266 substrate binding pocket [chemical binding]; other site 486410002267 membrane-bound complex binding site; other site 486410002268 hinge residues; other site 486410002269 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 486410002270 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 486410002271 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 486410002272 DNA primase; Validated; Region: dnaG; PRK05667 486410002273 CHC2 zinc finger; Region: zf-CHC2; pfam01807 486410002274 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 486410002275 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 486410002276 active site 486410002277 metal binding site [ion binding]; metal-binding site 486410002278 interdomain interaction site; other site 486410002279 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 486410002280 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 486410002281 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 486410002282 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 486410002283 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 486410002284 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 486410002285 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 486410002286 DNA binding residues [nucleotide binding] 486410002287 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 486410002288 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 486410002289 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 486410002290 NADP binding site [chemical binding]; other site 486410002291 active site 486410002292 putative substrate binding site [chemical binding]; other site 486410002293 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 486410002294 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 486410002295 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 486410002296 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 486410002297 Probable Catalytic site; other site 486410002298 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 486410002299 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 486410002300 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 486410002301 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 486410002302 Walker A/P-loop; other site 486410002303 ATP binding site [chemical binding]; other site 486410002304 Q-loop/lid; other site 486410002305 ABC transporter signature motif; other site 486410002306 Walker B; other site 486410002307 D-loop; other site 486410002308 H-loop/switch region; other site 486410002309 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 486410002310 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 486410002311 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 486410002312 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 486410002313 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 486410002314 active site 486410002315 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 486410002316 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 486410002317 active site 486410002318 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 486410002319 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 486410002320 Ligand binding site; other site 486410002321 Putative Catalytic site; other site 486410002322 DXD motif; other site 486410002323 Uncharacterized conserved protein (DUF2304); Region: DUF2304; pfam10066 486410002324 Sulfatase; Region: Sulfatase; pfam00884 486410002325 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 486410002326 UDP-glucose 4-epimerase; Region: PLN02240 486410002327 NAD binding site [chemical binding]; other site 486410002328 homodimer interface [polypeptide binding]; other site 486410002329 active site 486410002330 substrate binding site [chemical binding]; other site 486410002331 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 486410002332 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 486410002333 peptidase T; Region: peptidase-T; TIGR01882 486410002334 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 486410002335 metal binding site [ion binding]; metal-binding site 486410002336 dimer interface [polypeptide binding]; other site 486410002337 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 486410002338 cytidylate kinase; Provisional; Region: cmk; PRK00023 486410002339 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 486410002340 CMP-binding site; other site 486410002341 The sites determining sugar specificity; other site 486410002342 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 486410002343 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 486410002344 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 486410002345 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 486410002346 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 486410002347 23S rRNA binding site [nucleotide binding]; other site 486410002348 L21 binding site [polypeptide binding]; other site 486410002349 L13 binding site [polypeptide binding]; other site 486410002350 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 486410002351 Sulfatase; Region: Sulfatase; pfam00884 486410002352 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 486410002353 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 486410002354 putative RNA binding site [nucleotide binding]; other site 486410002355 Methyltransferase domain; Region: Methyltransf_26; pfam13659 486410002356 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 486410002357 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 486410002358 active site 486410002359 catalytic residue [active] 486410002360 dimer interface [polypeptide binding]; other site 486410002361 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 486410002362 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 486410002363 Tetramer interface [polypeptide binding]; other site 486410002364 active site 486410002365 FMN-binding site [chemical binding]; other site 486410002366 hypothetical protein; Provisional; Region: PRK13676 486410002367 glutathione reductase; Validated; Region: PRK06116 486410002368 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 486410002369 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 486410002370 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 486410002371 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 486410002372 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 486410002373 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 486410002374 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 486410002375 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 486410002376 catalytic residue [active] 486410002377 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 486410002378 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 486410002379 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 486410002380 Ligand Binding Site [chemical binding]; other site 486410002381 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 486410002382 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 486410002383 putative active site [active] 486410002384 putative metal binding site [ion binding]; other site 486410002385 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410002386 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410002387 Integrase core domain; Region: rve; pfam00665 486410002388 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 486410002389 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 486410002390 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 486410002391 Transcriptional regulator [Transcription]; Region: LysR; COG0583 486410002392 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 486410002393 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 486410002394 dimerization interface [polypeptide binding]; other site 486410002395 lipoprotein signal peptidase; Provisional; Region: PRK14797 486410002396 lipoprotein signal peptidase; Provisional; Region: PRK14787 486410002397 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 486410002398 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 486410002399 RNA binding surface [nucleotide binding]; other site 486410002400 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 486410002401 active site 486410002402 Uncharacterized conserved protein [Function unknown]; Region: COG0398 486410002403 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 486410002404 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 486410002405 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 486410002406 active site 486410002407 uracil transporter; Provisional; Region: PRK10720 486410002408 similar to aspartate carbamoyltransferase [Streptococcus pyogenes MGAS10750] 486410002409 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 486410002410 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 486410002411 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 486410002412 catalytic site [active] 486410002413 subunit interface [polypeptide binding]; other site 486410002414 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 486410002415 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 486410002416 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 486410002417 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 486410002418 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 486410002419 ATP-grasp domain; Region: ATP-grasp_4; cl17255 486410002420 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 486410002421 IMP binding site; other site 486410002422 dimer interface [polypeptide binding]; other site 486410002423 interdomain contacts; other site 486410002424 partial ornithine binding site; other site 486410002425 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 486410002426 HlyD family secretion protein; Region: HlyD_3; pfam13437 486410002427 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 486410002428 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 486410002429 Walker A/P-loop; other site 486410002430 ATP binding site [chemical binding]; other site 486410002431 Q-loop/lid; other site 486410002432 ABC transporter signature motif; other site 486410002433 Walker B; other site 486410002434 D-loop; other site 486410002435 H-loop/switch region; other site 486410002436 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 486410002437 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 486410002438 FtsX-like permease family; Region: FtsX; pfam02687 486410002439 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 486410002440 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 486410002441 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 486410002442 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 486410002443 putative active site [active] 486410002444 catalytic site [active] 486410002445 putative metal binding site [ion binding]; other site 486410002446 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 486410002447 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 486410002448 KH domain; Region: KH_4; pfam13083 486410002449 G-X-X-G motif; other site 486410002450 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 486410002451 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 486410002452 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 486410002453 RimM N-terminal domain; Region: RimM; pfam01782 486410002454 PRC-barrel domain; Region: PRC; pfam05239 486410002455 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 486410002456 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 486410002457 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 486410002458 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 486410002459 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 486410002460 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 486410002461 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 486410002462 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 486410002463 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 486410002464 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 486410002465 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 486410002466 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 486410002467 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 486410002468 putative substrate binding site [chemical binding]; other site 486410002469 putative ATP binding site [chemical binding]; other site 486410002470 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 486410002471 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 486410002472 active site 486410002473 phosphorylation site [posttranslational modification] 486410002474 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 486410002475 active site 486410002476 P-loop; other site 486410002477 phosphorylation site [posttranslational modification] 486410002478 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 486410002479 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 486410002480 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 486410002481 Protein of unknown function (DUF1149); Region: DUF1149; pfam06619 486410002482 EDD domain protein, DegV family; Region: DegV; TIGR00762 486410002483 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 486410002484 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 486410002485 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 486410002486 active site 486410002487 NTP binding site [chemical binding]; other site 486410002488 metal binding triad [ion binding]; metal-binding site 486410002489 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 486410002490 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 486410002491 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 486410002492 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410002493 Walker A/P-loop; other site 486410002494 ATP binding site [chemical binding]; other site 486410002495 Q-loop/lid; other site 486410002496 ABC transporter signature motif; other site 486410002497 Walker B; other site 486410002498 D-loop; other site 486410002499 H-loop/switch region; other site 486410002500 ABC transporter; Region: ABC_tran_2; pfam12848 486410002501 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410002502 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 486410002503 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410002504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410002505 Walker A/P-loop; other site 486410002506 ATP binding site [chemical binding]; other site 486410002507 Q-loop/lid; other site 486410002508 ABC transporter signature motif; other site 486410002509 Walker B; other site 486410002510 D-loop; other site 486410002511 H-loop/switch region; other site 486410002512 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 486410002513 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410002514 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 486410002515 Walker A/P-loop; other site 486410002516 ATP binding site [chemical binding]; other site 486410002517 Q-loop/lid; other site 486410002518 ABC transporter signature motif; other site 486410002519 Walker B; other site 486410002520 D-loop; other site 486410002521 H-loop/switch region; other site 486410002522 glutamate dehydrogenase; Provisional; Region: PRK09414 486410002523 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 486410002524 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 486410002525 NAD(P) binding site [chemical binding]; other site 486410002526 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 486410002527 active site 486410002528 catalytic residues [active] 486410002529 metal binding site [ion binding]; metal-binding site 486410002530 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 486410002531 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 486410002532 putative active site [active] 486410002533 putative metal binding site [ion binding]; other site 486410002534 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 486410002535 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 486410002536 synthetase active site [active] 486410002537 NTP binding site [chemical binding]; other site 486410002538 metal binding site [ion binding]; metal-binding site 486410002539 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 486410002540 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 486410002541 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 486410002542 active site 486410002543 phosphorylation site [posttranslational modification] 486410002544 intermolecular recognition site; other site 486410002545 dimerization interface [polypeptide binding]; other site 486410002546 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 486410002547 DNA binding site [nucleotide binding] 486410002548 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 486410002549 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 486410002550 dimer interface [polypeptide binding]; other site 486410002551 phosphorylation site [posttranslational modification] 486410002552 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 486410002553 ATP binding site [chemical binding]; other site 486410002554 Mg2+ binding site [ion binding]; other site 486410002555 G-X-G motif; other site 486410002556 similar to transposase [Streptococcus pyogenes MGAS10394] 486410002557 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 486410002558 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410002559 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410002560 Walker A/P-loop; other site 486410002561 ATP binding site [chemical binding]; other site 486410002562 Q-loop/lid; other site 486410002563 ABC transporter signature motif; other site 486410002564 Walker B; other site 486410002565 D-loop; other site 486410002566 H-loop/switch region; other site 486410002567 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 486410002568 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410002569 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 486410002570 Walker A/P-loop; other site 486410002571 ATP binding site [chemical binding]; other site 486410002572 Q-loop/lid; other site 486410002573 ABC transporter signature motif; other site 486410002574 Walker B; other site 486410002575 D-loop; other site 486410002576 H-loop/switch region; other site 486410002577 mevalonate kinase; Region: mevalon_kin; TIGR00549 486410002578 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 486410002579 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 486410002580 diphosphomevalonate decarboxylase; Region: PLN02407 486410002581 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 486410002582 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 486410002583 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 486410002584 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 486410002585 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 486410002586 homotetramer interface [polypeptide binding]; other site 486410002587 FMN binding site [chemical binding]; other site 486410002588 homodimer contacts [polypeptide binding]; other site 486410002589 putative active site [active] 486410002590 putative substrate binding site [chemical binding]; other site 486410002591 Mga helix-turn-helix domain; Region: Mga; pfam05043 486410002592 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 486410002593 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410002594 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410002595 Integrase core domain; Region: rve; pfam00665 486410002596 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 486410002597 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 486410002598 Mga helix-turn-helix domain; Region: Mga; pfam05043 486410002599 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 486410002600 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 486410002601 homodimer interface [polypeptide binding]; other site 486410002602 catalytic residues [active] 486410002603 NAD binding site [chemical binding]; other site 486410002604 substrate binding pocket [chemical binding]; other site 486410002605 flexible flap; other site 486410002606 "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 486410002607 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 486410002608 dimer interface [polypeptide binding]; other site 486410002609 active site 486410002610 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410002611 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410002612 Integrase core domain; Region: rve; pfam00665 486410002613 thymidylate synthase; Reviewed; Region: thyA; PRK01827 486410002614 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 486410002615 dimerization interface [polypeptide binding]; other site 486410002616 active site 486410002617 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 486410002618 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 486410002619 folate binding site [chemical binding]; other site 486410002620 NADP+ binding site [chemical binding]; other site 486410002621 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 486410002622 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 486410002623 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 486410002624 Walker A motif; other site 486410002625 ATP binding site [chemical binding]; other site 486410002626 Walker B motif; other site 486410002627 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 486410002628 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 486410002629 G1 box; other site 486410002630 GTP/Mg2+ binding site [chemical binding]; other site 486410002631 Switch I region; other site 486410002632 G2 box; other site 486410002633 G3 box; other site 486410002634 Switch II region; other site 486410002635 G4 box; other site 486410002636 G5 box; other site 486410002637 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 486410002638 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 486410002639 Walker A motif; other site 486410002640 ATP binding site [chemical binding]; other site 486410002641 Walker B motif; other site 486410002642 arginine finger; other site 486410002643 UvrB/uvrC motif; Region: UVR; pfam02151 486410002644 MoxR-like ATPases [General function prediction only]; Region: COG0714 486410002645 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 486410002646 Walker A motif; other site 486410002647 ATP binding site [chemical binding]; other site 486410002648 Walker B motif; other site 486410002649 arginine finger; other site 486410002650 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 486410002651 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410002652 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 486410002653 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 486410002654 23S rRNA interface [nucleotide binding]; other site 486410002655 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 486410002656 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 486410002657 core dimer interface [polypeptide binding]; other site 486410002658 L10 interface [polypeptide binding]; other site 486410002659 L11 interface [polypeptide binding]; other site 486410002660 putative EF-Tu interaction site [polypeptide binding]; other site 486410002661 putative EF-G interaction site [polypeptide binding]; other site 486410002662 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 486410002663 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 486410002664 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 486410002665 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 486410002666 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 486410002667 putative active site [active] 486410002668 putative metal binding site [ion binding]; other site 486410002669 homoserine dehydrogenase; Provisional; Region: PRK06349 486410002670 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 486410002671 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 486410002672 homoserine kinase; Provisional; Region: PRK01212 486410002673 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 486410002674 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 486410002675 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 486410002676 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 486410002677 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 486410002678 homodecamer interface [polypeptide binding]; other site 486410002679 GTP cyclohydrolase I; Provisional; Region: PLN03044 486410002680 active site 486410002681 putative catalytic site residues [active] 486410002682 zinc binding site [ion binding]; other site 486410002683 GTP-CH-I/GFRP interaction surface; other site 486410002684 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 486410002685 dihydropteroate synthase; Region: DHPS; TIGR01496 486410002686 substrate binding pocket [chemical binding]; other site 486410002687 dimer interface [polypeptide binding]; other site 486410002688 inhibitor binding site; inhibition site 486410002689 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 486410002690 homooctamer interface [polypeptide binding]; other site 486410002691 active site 486410002692 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 486410002693 catalytic center binding site [active] 486410002694 ATP binding site [chemical binding]; other site 486410002695 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 486410002696 FAD binding domain; Region: FAD_binding_4; pfam01565 486410002697 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 486410002698 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 486410002699 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 486410002700 Walker A/P-loop; other site 486410002701 ATP binding site [chemical binding]; other site 486410002702 Q-loop/lid; other site 486410002703 ABC transporter signature motif; other site 486410002704 Walker B; other site 486410002705 D-loop; other site 486410002706 H-loop/switch region; other site 486410002707 TOBE domain; Region: TOBE_2; pfam08402 486410002708 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 486410002709 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 486410002710 dimer interface [polypeptide binding]; other site 486410002711 conserved gate region; other site 486410002712 putative PBP binding loops; other site 486410002713 ABC-ATPase subunit interface; other site 486410002714 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 486410002715 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 486410002716 dimer interface [polypeptide binding]; other site 486410002717 conserved gate region; other site 486410002718 putative PBP binding loops; other site 486410002719 ABC-ATPase subunit interface; other site 486410002720 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 486410002721 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 486410002722 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 486410002723 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 486410002724 active site 486410002725 phosphorylation site [posttranslational modification] 486410002726 intermolecular recognition site; other site 486410002727 dimerization interface [polypeptide binding]; other site 486410002728 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 486410002729 Na+/citrate symporter [Energy production and conversion]; Region: CitS; COG3493 486410002730 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 486410002731 Malic enzyme, N-terminal domain; Region: malic; pfam00390 486410002732 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 486410002733 putative NAD(P) binding site [chemical binding]; other site 486410002734 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 486410002735 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 486410002736 Cl- selectivity filter; other site 486410002737 Cl- binding residues [ion binding]; other site 486410002738 pore gating glutamate residue; other site 486410002739 dimer interface [polypeptide binding]; other site 486410002740 H+/Cl- coupling transport residue; other site 486410002741 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 486410002742 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 486410002743 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 486410002744 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 486410002745 active site 486410002746 catalytic triad [active] 486410002747 oxyanion hole [active] 486410002748 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 486410002749 Domain of unknown function DUF20; Region: UPF0118; pfam01594 486410002750 hypothetical protein; Reviewed; Region: PRK00024 486410002751 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 486410002752 MPN+ (JAMM) motif; other site 486410002753 Zinc-binding site [ion binding]; other site 486410002754 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 486410002755 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 486410002756 catalytic triad [active] 486410002757 AT-rich DNA-binding protein [General function prediction only]; Region: COG2344 486410002758 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 486410002759 CoA binding domain; Region: CoA_binding; pfam02629 486410002760 Putative amino acid metabolism; Region: DUF1831; pfam08866 486410002761 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 486410002762 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 486410002763 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 486410002764 catalytic residue [active] 486410002765 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 486410002766 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 486410002767 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 486410002768 active site 486410002769 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 486410002770 putative active site [active] 486410002771 putative metal binding residues [ion binding]; other site 486410002772 signature motif; other site 486410002773 putative triphosphate binding site [ion binding]; other site 486410002774 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 486410002775 synthetase active site [active] 486410002776 NTP binding site [chemical binding]; other site 486410002777 metal binding site [ion binding]; metal-binding site 486410002778 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 486410002779 ATP-NAD kinase; Region: NAD_kinase; pfam01513 486410002780 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 486410002781 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 486410002782 active site 486410002783 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 486410002784 malonic semialdehyde reductase; Provisional; Region: PRK10538 486410002785 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 486410002786 putative NAD(P) binding site [chemical binding]; other site 486410002787 homotetramer interface [polypeptide binding]; other site 486410002788 homodimer interface [polypeptide binding]; other site 486410002789 active site 486410002790 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 486410002791 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410002792 Walker A/P-loop; other site 486410002793 ATP binding site [chemical binding]; other site 486410002794 Q-loop/lid; other site 486410002795 ABC transporter signature motif; other site 486410002796 Walker B; other site 486410002797 D-loop; other site 486410002798 H-loop/switch region; other site 486410002799 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 486410002800 dimer interface [polypeptide binding]; other site 486410002801 conserved gate region; other site 486410002802 ABC-ATPase subunit interface; other site 486410002803 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 486410002804 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 486410002805 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 486410002806 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 486410002807 active site 486410002808 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 486410002809 active site 486410002810 xanthine permease; Region: pbuX; TIGR03173 486410002811 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 486410002812 ApbE family; Region: ApbE; pfam02424 486410002813 4-oxalocrotonate tautomerase; Provisional; Region: PRK02289 486410002814 active site 1 [active] 486410002815 dimer interface [polypeptide binding]; other site 486410002816 hexamer interface [polypeptide binding]; other site 486410002817 active site 2 [active] 486410002818 thymidine kinase; Provisional; Region: PRK04296 486410002819 peptide chain release factor 1; Validated; Region: prfA; PRK00591 486410002820 This domain is found in peptide chain release factors; Region: PCRF; smart00937 486410002821 RF-1 domain; Region: RF-1; pfam00472 486410002822 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 486410002823 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 486410002824 S-adenosylmethionine binding site [chemical binding]; other site 486410002825 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 486410002826 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 486410002827 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 486410002828 Coenzyme A binding pocket [chemical binding]; other site 486410002829 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 486410002830 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 486410002831 dimer interface [polypeptide binding]; other site 486410002832 active site 486410002833 glycine-pyridoxal phosphate binding site [chemical binding]; other site 486410002834 folate binding site [chemical binding]; other site 486410002835 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 486410002836 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 486410002837 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 486410002838 N-acetyl-D-glucosamine binding site [chemical binding]; other site 486410002839 catalytic residue [active] 486410002840 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 486410002841 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410002842 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410002843 Walker A/P-loop; other site 486410002844 ATP binding site [chemical binding]; other site 486410002845 Q-loop/lid; other site 486410002846 ABC transporter signature motif; other site 486410002847 Walker B; other site 486410002848 D-loop; other site 486410002849 H-loop/switch region; other site 486410002850 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 486410002851 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410002852 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 486410002853 Walker A/P-loop; other site 486410002854 ATP binding site [chemical binding]; other site 486410002855 Q-loop/lid; other site 486410002856 ABC transporter signature motif; other site 486410002857 Walker B; other site 486410002858 D-loop; other site 486410002859 H-loop/switch region; other site 486410002860 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 486410002861 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 486410002862 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 486410002863 RibD C-terminal domain; Region: RibD_C; cl17279 486410002864 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 486410002865 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 486410002866 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 486410002867 tetramer (dimer of dimers) interface [polypeptide binding]; other site 486410002868 NAD binding site [chemical binding]; other site 486410002869 dimer interface [polypeptide binding]; other site 486410002870 substrate binding site [chemical binding]; other site 486410002871 DNA gyrase subunit A; Validated; Region: PRK05560 486410002872 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 486410002873 CAP-like domain; other site 486410002874 active site 486410002875 primary dimer interface [polypeptide binding]; other site 486410002876 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 486410002877 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 486410002878 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 486410002879 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 486410002880 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 486410002881 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 486410002882 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 486410002883 active site 486410002884 catalytic site [active] 486410002885 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 486410002886 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 486410002887 putative metal binding site [ion binding]; other site 486410002888 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 486410002889 potential frameshift: common BLAST hit: gi|225868526|ref|YP_002744474.1| laminin binding protein 486410002890 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 486410002891 intersubunit interface [polypeptide binding]; other site 486410002892 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 486410002893 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 486410002894 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 486410002895 Predicted secreted protein [Function unknown]; Region: COG4086 486410002896 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 486410002897 HTH-like domain; Region: HTH_21; pfam13276 486410002898 Integrase core domain; Region: rve; pfam00665 486410002899 Integrase core domain; Region: rve_3; pfam13683 486410002900 Transposase; Region: HTH_Tnp_1; pfam01527 486410002901 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 486410002902 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 486410002903 HlyD family secretion protein; Region: HlyD_3; pfam13437 486410002904 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 486410002905 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 486410002906 Walker A/P-loop; other site 486410002907 ATP binding site [chemical binding]; other site 486410002908 Q-loop/lid; other site 486410002909 ABC transporter signature motif; other site 486410002910 Walker B; other site 486410002911 D-loop; other site 486410002912 H-loop/switch region; other site 486410002913 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 486410002914 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 486410002915 FtsX-like permease family; Region: FtsX; pfam02687 486410002916 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 486410002917 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 486410002918 active site 486410002919 phosphorylation site [posttranslational modification] 486410002920 intermolecular recognition site; other site 486410002921 dimerization interface [polypeptide binding]; other site 486410002922 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 486410002923 DNA binding site [nucleotide binding] 486410002924 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 486410002925 HAMP domain; Region: HAMP; pfam00672 486410002926 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 486410002927 dimer interface [polypeptide binding]; other site 486410002928 phosphorylation site [posttranslational modification] 486410002929 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 486410002930 ATP binding site [chemical binding]; other site 486410002931 Mg2+ binding site [ion binding]; other site 486410002932 G-X-G motif; other site 486410002933 Surface antigen [General function prediction only]; Region: COG3942 486410002934 CHAP domain; Region: CHAP; pfam05257 486410002935 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 486410002936 putative active site [active] 486410002937 catalytic triad [active] 486410002938 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 486410002939 PA/protease domain interface [polypeptide binding]; other site 486410002940 putative integrin binding motif; other site 486410002941 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 486410002942 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 486410002943 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 486410002944 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 486410002945 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 486410002946 metal binding site [ion binding]; metal-binding site 486410002947 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 486410002948 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 486410002949 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 486410002950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 486410002951 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 486410002952 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 486410002953 Walker A/P-loop; other site 486410002954 ATP binding site [chemical binding]; other site 486410002955 Q-loop/lid; other site 486410002956 ABC transporter signature motif; other site 486410002957 Walker B; other site 486410002958 D-loop; other site 486410002959 H-loop/switch region; other site 486410002960 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 486410002961 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 486410002962 Walker A/P-loop; other site 486410002963 ATP binding site [chemical binding]; other site 486410002964 Q-loop/lid; other site 486410002965 ABC transporter signature motif; other site 486410002966 Walker B; other site 486410002967 D-loop; other site 486410002968 H-loop/switch region; other site 486410002969 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 486410002970 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 486410002971 dimer interface [polypeptide binding]; other site 486410002972 conserved gate region; other site 486410002973 putative PBP binding loops; other site 486410002974 ABC-ATPase subunit interface; other site 486410002975 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 486410002976 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 486410002977 dimer interface [polypeptide binding]; other site 486410002978 conserved gate region; other site 486410002979 putative PBP binding loops; other site 486410002980 ABC-ATPase subunit interface; other site 486410002981 potential frameshift: common BLAST hit: gi|94991282|ref|YP_599382.1| dipeptide-binding protein 486410002982 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 486410002983 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 486410002984 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 486410002985 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 486410002986 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410002987 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410002988 Integrase core domain; Region: rve; pfam00665 486410002989 FemAB family; Region: FemAB; pfam02388 486410002990 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 486410002991 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 486410002992 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 486410002993 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 486410002994 DDE superfamily endonuclease; Region: DDE_4; cl17710 486410002995 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410002996 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 486410002997 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 486410002998 Restriction endonuclease EcoRI; Region: EcoRI; pfam02963 486410002999 Adenine-specific methyltransferase EcoRI; Region: EcoRI_methylase; pfam13651 486410003000 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 486410003001 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410003002 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 486410003003 GMP synthase; Reviewed; Region: guaA; PRK00074 486410003004 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 486410003005 AMP/PPi binding site [chemical binding]; other site 486410003006 candidate oxyanion hole; other site 486410003007 catalytic triad [active] 486410003008 potential glutamine specificity residues [chemical binding]; other site 486410003009 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 486410003010 ATP Binding subdomain [chemical binding]; other site 486410003011 Dimerization subdomain; other site 486410003012 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 486410003013 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 486410003014 DNA-binding site [nucleotide binding]; DNA binding site 486410003015 UTRA domain; Region: UTRA; pfam07702 486410003016 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 486410003017 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 486410003018 signal recognition particle protein; Provisional; Region: PRK10867 486410003019 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 486410003020 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 486410003021 P loop; other site 486410003022 GTP binding site [chemical binding]; other site 486410003023 Signal peptide binding domain; Region: SRP_SPB; pfam02978 486410003024 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 486410003025 conserved FAD binding motif [chemical binding]; other site 486410003026 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 486410003027 beta-alpha-beta structure motif; other site 486410003028 NAD binding pocket [chemical binding]; other site 486410003029 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 486410003030 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 486410003031 non-specific DNA binding site [nucleotide binding]; other site 486410003032 salt bridge; other site 486410003033 sequence-specific DNA binding site [nucleotide binding]; other site 486410003034 Predicted transcriptional regulator [Transcription]; Region: COG2932 486410003035 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 486410003036 Catalytic site [active] 486410003037 putative oxidoreductase; Provisional; Region: PRK10206 486410003038 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 486410003039 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 486410003040 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 486410003041 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 486410003042 active site 486410003043 phosphorylation site [posttranslational modification] 486410003044 intermolecular recognition site; other site 486410003045 dimerization interface [polypeptide binding]; other site 486410003046 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 486410003047 DNA binding site [nucleotide binding] 486410003048 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 486410003049 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 486410003050 dimerization interface [polypeptide binding]; other site 486410003051 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 486410003052 dimer interface [polypeptide binding]; other site 486410003053 phosphorylation site [posttranslational modification] 486410003054 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 486410003055 ATP binding site [chemical binding]; other site 486410003056 Mg2+ binding site [ion binding]; other site 486410003057 G-X-G motif; other site 486410003058 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 486410003059 potential frameshift: common BLAST hit: gi|55822325|ref|YP_140766.1| peptidoglycan branched peptide synthesis protein, alanine adding 486410003060 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 486410003061 FemAB family; Region: FemAB; pfam02388 486410003062 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 486410003063 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 486410003064 active site 486410003065 DNA binding site [nucleotide binding] 486410003066 Int/Topo IB signature motif; other site 486410003067 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 486410003068 trimer interface [polypeptide binding]; other site 486410003069 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 486410003070 UbiA prenyltransferase family; Region: UbiA; pfam01040 486410003071 ApbE family; Region: ApbE; pfam02424 486410003072 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 486410003073 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 486410003074 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 486410003075 ATP binding site [chemical binding]; other site 486410003076 Mg2+ binding site [ion binding]; other site 486410003077 G-X-G motif; other site 486410003078 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 486410003079 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 486410003080 active site 486410003081 phosphorylation site [posttranslational modification] 486410003082 intermolecular recognition site; other site 486410003083 dimerization interface [polypeptide binding]; other site 486410003084 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 486410003085 DNA binding site [nucleotide binding] 486410003086 FtsX-like permease family; Region: FtsX; pfam02687 486410003087 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 486410003088 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 486410003089 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 486410003090 Walker A/P-loop; other site 486410003091 ATP binding site [chemical binding]; other site 486410003092 Q-loop/lid; other site 486410003093 ABC transporter signature motif; other site 486410003094 Walker B; other site 486410003095 D-loop; other site 486410003096 H-loop/switch region; other site 486410003097 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 486410003098 Active site serine [active] 486410003099 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 486410003100 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 486410003101 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 486410003102 putative active site [active] 486410003103 (T/H)XGH motif; other site 486410003104 oxaloacetate decarboxylase; Provisional; Region: PRK12331 486410003105 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 486410003106 active site 486410003107 catalytic residues [active] 486410003108 metal binding site [ion binding]; metal-binding site 486410003109 homodimer binding site [polypeptide binding]; other site 486410003110 Transposase; Region: DEDD_Tnp_IS110; pfam01548 486410003111 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 486410003112 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 486410003113 2'-(5''-triphosphoribosyl)-3'- dephospho-CoA:apo-citrate lyase; Reviewed; Region: citX; PRK01392 486410003114 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 486410003115 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 486410003116 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 486410003117 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 486410003118 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 486410003119 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; pfam03977 486410003120 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 486410003121 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 486410003122 carboxyltransferase (CT) interaction site; other site 486410003123 biotinylation site [posttranslational modification]; other site 486410003124 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 486410003125 Citrate transporter; Region: CitMHS; pfam03600 486410003126 Transcriptional regulators [Transcription]; Region: GntR; COG1802 486410003127 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 486410003128 DNA-binding site [nucleotide binding]; DNA binding site 486410003129 FCD domain; Region: FCD; pfam07729 486410003130 triphosphoribosyl-dephospho-CoA synthase CitG; Region: citrate_citG; TIGR03125 486410003131 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 486410003132 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 486410003133 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 486410003134 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 486410003135 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 486410003136 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 486410003137 carboxyltransferase (CT) interaction site; other site 486410003138 biotinylation site [posttranslational modification]; other site 486410003139 oxaloacetate decarboxylase; Provisional; Region: PRK12581 486410003140 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 486410003141 active site 486410003142 catalytic residues [active] 486410003143 metal binding site [ion binding]; metal-binding site 486410003144 homodimer binding site [polypeptide binding]; other site 486410003145 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 486410003146 Glucose inhibited division protein A; Region: GIDA; pfam01134 486410003147 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 486410003148 D-lactate dehydrogenase; Validated; Region: PRK08605 486410003149 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 486410003150 homodimer interface [polypeptide binding]; other site 486410003151 ligand binding site [chemical binding]; other site 486410003152 NAD binding site [chemical binding]; other site 486410003153 catalytic site [active] 486410003154 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 486410003155 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 486410003156 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410003157 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 486410003158 potential frameshift: common BLAST hit: gi|76787548|ref|YP_329441.1| LysR family transcriptional regulator 486410003159 Transcriptional regulator [Transcription]; Region: LysR; COG0583 486410003160 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 486410003161 Transcriptional regulator [Transcription]; Region: LysR; COG0583 486410003162 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 486410003163 dimerization interface [polypeptide binding]; other site 486410003164 DNA topoisomerase I; Validated; Region: PRK05582 486410003165 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 486410003166 active site 486410003167 interdomain interaction site; other site 486410003168 putative metal-binding site [ion binding]; other site 486410003169 nucleotide binding site [chemical binding]; other site 486410003170 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 486410003171 domain I; other site 486410003172 DNA binding groove [nucleotide binding] 486410003173 phosphate binding site [ion binding]; other site 486410003174 domain II; other site 486410003175 domain III; other site 486410003176 nucleotide binding site [chemical binding]; other site 486410003177 catalytic site [active] 486410003178 domain IV; other site 486410003179 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 486410003180 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 486410003181 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 486410003182 DNA protecting protein DprA; Region: dprA; TIGR00732 486410003183 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 486410003184 RNA/DNA hybrid binding site [nucleotide binding]; other site 486410003185 active site 486410003186 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 486410003187 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 486410003188 GTP/Mg2+ binding site [chemical binding]; other site 486410003189 G4 box; other site 486410003190 G5 box; other site 486410003191 G1 box; other site 486410003192 Switch I region; other site 486410003193 G2 box; other site 486410003194 G3 box; other site 486410003195 Switch II region; other site 486410003196 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 486410003197 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 486410003198 non-specific DNA binding site [nucleotide binding]; other site 486410003199 salt bridge; other site 486410003200 sequence-specific DNA binding site [nucleotide binding]; other site 486410003201 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 486410003202 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 486410003203 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 486410003204 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 486410003205 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 486410003206 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 486410003207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 486410003208 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 486410003209 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410003210 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410003211 ABC transporter; Region: ABC_tran_2; pfam12848 486410003212 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410003213 Staphylokinase/Streptokinase family; Region: Staphylokinase; pfam02821 486410003214 Predicted membrane protein [Function unknown]; Region: COG4720 486410003215 pyridoxamine kinase; Validated; Region: PRK07105 486410003216 substrate binding site [chemical binding]; other site 486410003217 ATP binding site [chemical binding]; other site 486410003218 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 486410003219 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 486410003220 DNA-binding site [nucleotide binding]; DNA binding site 486410003221 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 486410003222 pyridoxal 5'-phosphate binding site [chemical binding]; other site 486410003223 homodimer interface [polypeptide binding]; other site 486410003224 catalytic residue [active] 486410003225 ATP cone domain; Region: ATP-cone; pfam03477 486410003226 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 486410003227 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 486410003228 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 486410003229 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 486410003230 putative active site [active] 486410003231 catalytic site [active] 486410003232 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 486410003233 putative active site [active] 486410003234 catalytic site [active] 486410003235 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 486410003236 Integrase core domain; Region: rve_3; pfam13683 486410003237 potential frameshift: common BLAST hit: gi|76787883|ref|YP_329927.1| ISSag4, transposase orfA 486410003238 Transposase; Region: HTH_Tnp_1; cl17663 486410003239 putative transposase OrfB; Reviewed; Region: PHA02517 486410003240 HTH-like domain; Region: HTH_21; pfam13276 486410003241 Integrase core domain; Region: rve; pfam00665 486410003242 Transposase; Region: HTH_Tnp_1; pfam01527 486410003243 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 486410003244 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 486410003245 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 486410003246 Potassium binding sites [ion binding]; other site 486410003247 Cesium cation binding sites [ion binding]; other site 486410003248 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 486410003249 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 486410003250 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 486410003251 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 486410003252 Macro domain, Unknown family 1. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases)...; Region: Macro_1; cd02906 486410003253 putative ADP-ribose binding site [chemical binding]; other site 486410003254 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 486410003255 lipoyl attachment site [posttranslational modification]; other site 486410003256 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 486410003257 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 486410003258 putative active site [active] 486410003259 putative FMN binding site [chemical binding]; other site 486410003260 putative substrate binding site [chemical binding]; other site 486410003261 putative catalytic residue [active] 486410003262 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 486410003263 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 486410003264 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 486410003265 Flavoprotein; Region: Flavoprotein; pfam02441 486410003266 Predicted membrane protein [Function unknown]; Region: COG4684 486410003267 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 486410003268 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 486410003269 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 486410003270 active site 486410003271 substrate binding site [chemical binding]; other site 486410003272 metal binding site [ion binding]; metal-binding site 486410003273 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 486410003274 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 486410003275 TM-ABC transporter signature motif; other site 486410003276 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 486410003277 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 486410003278 TM-ABC transporter signature motif; other site 486410003279 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 486410003280 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 486410003281 Walker A/P-loop; other site 486410003282 ATP binding site [chemical binding]; other site 486410003283 Q-loop/lid; other site 486410003284 ABC transporter signature motif; other site 486410003285 Walker B; other site 486410003286 D-loop; other site 486410003287 H-loop/switch region; other site 486410003288 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 486410003289 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 486410003290 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 486410003291 ligand binding site [chemical binding]; other site 486410003292 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 486410003293 active site 486410003294 catalytic motif [active] 486410003295 Zn binding site [ion binding]; other site 486410003296 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 486410003297 intersubunit interface [polypeptide binding]; other site 486410003298 active site 486410003299 catalytic residue [active] 486410003300 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 486410003301 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 486410003302 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 486410003303 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 486410003304 Methyltransferase domain; Region: Methyltransf_31; pfam13847 486410003305 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 486410003306 S-adenosylmethionine binding site [chemical binding]; other site 486410003307 pantothenate kinase; Provisional; Region: PRK05439 486410003308 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 486410003309 ATP-binding site [chemical binding]; other site 486410003310 CoA-binding site [chemical binding]; other site 486410003311 Mg2+-binding site [ion binding]; other site 486410003312 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 486410003313 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 486410003314 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 486410003315 dimer interface [polypeptide binding]; other site 486410003316 phosphorylation site [posttranslational modification] 486410003317 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 486410003318 ATP binding site [chemical binding]; other site 486410003319 Mg2+ binding site [ion binding]; other site 486410003320 G-X-G motif; other site 486410003321 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 486410003322 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 486410003323 active site 486410003324 phosphorylation site [posttranslational modification] 486410003325 intermolecular recognition site; other site 486410003326 dimerization interface [polypeptide binding]; other site 486410003327 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 486410003328 DNA binding site [nucleotide binding] 486410003329 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 486410003330 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 486410003331 Zn binding site [ion binding]; other site 486410003332 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 486410003333 PhoU domain; Region: PhoU; pfam01895 486410003334 PhoU domain; Region: PhoU; pfam01895 486410003335 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 486410003336 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 486410003337 Walker A/P-loop; other site 486410003338 ATP binding site [chemical binding]; other site 486410003339 Q-loop/lid; other site 486410003340 ABC transporter signature motif; other site 486410003341 Walker B; other site 486410003342 D-loop; other site 486410003343 H-loop/switch region; other site 486410003344 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 486410003345 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 486410003346 Walker A/P-loop; other site 486410003347 ATP binding site [chemical binding]; other site 486410003348 Q-loop/lid; other site 486410003349 ABC transporter signature motif; other site 486410003350 Walker B; other site 486410003351 D-loop; other site 486410003352 H-loop/switch region; other site 486410003353 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 486410003354 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 486410003355 dimer interface [polypeptide binding]; other site 486410003356 conserved gate region; other site 486410003357 putative PBP binding loops; other site 486410003358 ABC-ATPase subunit interface; other site 486410003359 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 486410003360 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 486410003361 dimer interface [polypeptide binding]; other site 486410003362 conserved gate region; other site 486410003363 putative PBP binding loops; other site 486410003364 ABC-ATPase subunit interface; other site 486410003365 PBP superfamily domain; Region: PBP_like_2; cl17296 486410003366 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 486410003367 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 486410003368 S-adenosylmethionine binding site [chemical binding]; other site 486410003369 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 486410003370 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 486410003371 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 486410003372 active site 486410003373 hypothetical protein; Provisional; Region: PRK04387 486410003374 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 486410003375 ArsC family; Region: ArsC; pfam03960 486410003376 putative catalytic residues [active] 486410003377 thiol/disulfide switch; other site 486410003378 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 486410003379 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 486410003380 active site 486410003381 Riboflavin kinase; Region: Flavokinase; pfam01687 486410003382 potential frameshift: common BLAST hit: gi|94992254|ref|YP_600353.1| transposase 486410003383 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410003384 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 486410003385 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 486410003386 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 486410003387 RNA binding site [nucleotide binding]; other site 486410003388 active site 486410003389 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 486410003390 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 486410003391 Predicted membrane protein [Function unknown]; Region: COG4129 486410003392 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 486410003393 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 486410003394 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 486410003395 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 486410003396 FtsX-like permease family; Region: FtsX; pfam02687 486410003397 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 486410003398 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 486410003399 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 486410003400 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 486410003401 Walker A/P-loop; other site 486410003402 ATP binding site [chemical binding]; other site 486410003403 Q-loop/lid; other site 486410003404 ABC transporter signature motif; other site 486410003405 Walker B; other site 486410003406 D-loop; other site 486410003407 H-loop/switch region; other site 486410003408 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 486410003409 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 486410003410 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 486410003411 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 486410003412 DNA-binding site [nucleotide binding]; DNA binding site 486410003413 TrkA-C domain; Region: TrkA_C; pfam02080 486410003414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 486410003415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 486410003416 Small integral membrane protein [Function unknown]; Region: COG5547 486410003417 Predicted membrane protein [Function unknown]; Region: COG2261 486410003418 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 486410003419 Part of AAA domain; Region: AAA_19; pfam13245 486410003420 Family description; Region: UvrD_C_2; pfam13538 486410003421 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 486410003422 amino acid carrier protein; Region: agcS; TIGR00835 486410003423 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 486410003424 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 486410003425 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 486410003426 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 486410003427 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410003428 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 486410003429 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 486410003430 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 486410003431 substrate binding pocket [chemical binding]; other site 486410003432 membrane-bound complex binding site; other site 486410003433 hinge residues; other site 486410003434 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 486410003435 ATP-binding cassette domain of the binding protein-dependent transport systems; Region: ABC_Class3; cd03229 486410003436 Walker A/P-loop; other site 486410003437 ATP binding site [chemical binding]; other site 486410003438 Q-loop/lid; other site 486410003439 ABC transporter signature motif; other site 486410003440 Walker B; other site 486410003441 D-loop; other site 486410003442 H-loop/switch region; other site 486410003443 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 486410003444 dimer interface [polypeptide binding]; other site 486410003445 conserved gate region; other site 486410003446 ABC-ATPase subunit interface; other site 486410003447 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 486410003448 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 486410003449 PhnA protein; Region: PhnA; pfam03831 486410003450 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 486410003451 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 486410003452 glutaminase active site [active] 486410003453 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 486410003454 dimer interface [polypeptide binding]; other site 486410003455 active site 486410003456 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 486410003457 dimer interface [polypeptide binding]; other site 486410003458 active site 486410003459 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 486410003460 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; cl10465 486410003461 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; cl10465 486410003462 pyruvate kinase; Provisional; Region: PRK05826 486410003463 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 486410003464 domain interfaces; other site 486410003465 active site 486410003466 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 486410003467 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 486410003468 active site 486410003469 ADP/pyrophosphate binding site [chemical binding]; other site 486410003470 dimerization interface [polypeptide binding]; other site 486410003471 allosteric effector site; other site 486410003472 fructose-1,6-bisphosphate binding site; other site 486410003473 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 486410003474 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 486410003475 active site 486410003476 PHP Thumb interface [polypeptide binding]; other site 486410003477 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 486410003478 generic binding surface II; other site 486410003479 generic binding surface I; other site 486410003480 Predicted transcriptional regulators [Transcription]; Region: COG1725 486410003481 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 486410003482 DNA-binding site [nucleotide binding]; DNA binding site 486410003483 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 486410003484 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 486410003485 Walker A/P-loop; other site 486410003486 ATP binding site [chemical binding]; other site 486410003487 Q-loop/lid; other site 486410003488 ABC transporter signature motif; other site 486410003489 Walker B; other site 486410003490 D-loop; other site 486410003491 H-loop/switch region; other site 486410003492 Uncharacterized conserved protein [Function unknown]; Region: COG0398 486410003493 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 486410003494 streptodornase; Region: PHA01790 486410003495 CsbD-like; Region: CsbD; cl17424 486410003496 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 486410003497 CHAP domain; Region: CHAP; pfam05257 486410003498 Bacterial SH3 domain; Region: SH3_5; pfam08460 486410003499 Holin family; Region: Phage_holin_4; pfam05105 486410003500 Protein of unknown function (DUF1617); Region: DUF1617; pfam07761 486410003501 gp58-like protein; Region: Gp58; pfam07902 486410003502 potential frameshift: common BLAST hit: gi|50914550|ref|YP_060522.1| Phage endopeptidase 486410003503 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 486410003504 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 486410003505 Phage-related protein [Function unknown]; Region: COG4722 486410003506 Phage-related protein [Function unknown]; Region: COG5412 486410003507 NUMOD4 motif; Region: NUMOD4; pfam07463 486410003508 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 486410003509 active site 486410003510 Intron encoded nuclease repeat motif; Region: IENR1; smart00497 486410003511 Phage-related protein [Function unknown]; Region: COG5412 486410003512 Phage protein Gp19/Gp15/Gp42; Region: Phage_Gp19; pfam09355 486410003513 HeH/LEM domain; Region: HeH; pfam12949 486410003514 Phage capsid family; Region: Phage_capsid; pfam05065 486410003515 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 486410003516 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 486410003517 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 486410003518 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 486410003519 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 486410003520 active site 486410003521 Protein of unknown function (DUF1492); Region: DUF1492; pfam07374 486410003522 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 486410003523 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 486410003524 RecT family; Region: RecT; cl04285 486410003525 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 486410003526 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 486410003527 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 486410003528 non-specific DNA binding site [nucleotide binding]; other site 486410003529 salt bridge; other site 486410003530 sequence-specific DNA binding site [nucleotide binding]; other site 486410003531 Domain of unknown function (DUF955); Region: DUF955; pfam06114 486410003532 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 486410003533 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 486410003534 Int/Topo IB signature motif; other site 486410003535 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 486410003536 potential frameshift: common BLAST hit: gi|50914543|ref|YP_060515.1| Phage-associated cell wall hydrolase 486410003537 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 486410003538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 486410003539 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410003540 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 486410003541 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 486410003542 RNA binding site [nucleotide binding]; other site 486410003543 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 486410003544 RNA binding site [nucleotide binding]; other site 486410003545 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 486410003546 RNA binding site [nucleotide binding]; other site 486410003547 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 486410003548 RNA binding site [nucleotide binding]; other site 486410003549 potential protein location (hypothetical protein SDEG_1166 [Streptococcus dysgalactiae subsp. equisimilis GGS_124]) that overlaps RNA (tRNA-Q) 486410003550 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 486410003551 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 486410003552 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 486410003553 homodimer interface [polypeptide binding]; other site 486410003554 substrate-cofactor binding pocket; other site 486410003555 catalytic residue [active] 486410003556 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410003557 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410003558 Integrase core domain; Region: rve; pfam00665 486410003559 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 486410003560 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 486410003561 CAP-like domain; other site 486410003562 active site 486410003563 primary dimer interface [polypeptide binding]; other site 486410003564 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 486410003565 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 486410003566 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 486410003567 Mg2+ binding site [ion binding]; other site 486410003568 G-X-G motif; other site 486410003569 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 486410003570 anchoring element; other site 486410003571 dimer interface [polypeptide binding]; other site 486410003572 ATP binding site [chemical binding]; other site 486410003573 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 486410003574 active site 486410003575 putative metal-binding site [ion binding]; other site 486410003576 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 486410003577 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 486410003578 dihydroorotase; Validated; Region: pyrC; PRK09357 486410003579 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 486410003580 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 486410003581 active site 486410003582 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 486410003583 ligand binding site [chemical binding]; other site 486410003584 active site 486410003585 UGI interface [polypeptide binding]; other site 486410003586 catalytic site [active] 486410003587 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 486410003588 dimer interface [polypeptide binding]; other site 486410003589 conserved gate region; other site 486410003590 putative PBP binding loops; other site 486410003591 ABC-ATPase subunit interface; other site 486410003592 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 486410003593 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 486410003594 substrate binding pocket [chemical binding]; other site 486410003595 membrane-bound complex binding site; other site 486410003596 hinge residues; other site 486410003597 amidase; Provisional; Region: PRK06529 486410003598 Amidase; Region: Amidase; cl11426 486410003599 putative transposase OrfB; Reviewed; Region: PHA02517 486410003600 HTH-like domain; Region: HTH_21; pfam13276 486410003601 Integrase core domain; Region: rve; pfam00665 486410003602 Integrase core domain; Region: rve_2; pfam13333 486410003603 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 486410003604 Transposase; Region: HTH_Tnp_1; cl17663 486410003605 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 486410003606 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 486410003607 Coenzyme A binding pocket [chemical binding]; other site 486410003608 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 486410003609 active site 486410003610 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 486410003611 active site 486410003612 dimer interface [polypeptide binding]; other site 486410003613 Transcriptional regulator [Transcription]; Region: LysR; COG0583 486410003614 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 486410003615 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl09873 486410003616 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 486410003617 purine nucleoside phosphorylase; Provisional; Region: PRK08202 486410003618 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 486410003619 ArsC family; Region: ArsC; pfam03960 486410003620 catalytic residues [active] 486410003621 phosphopentomutase; Provisional; Region: PRK05362 486410003622 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 486410003623 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 486410003624 tetramer (dimer of dimers) interface [polypeptide binding]; other site 486410003625 active site 486410003626 dimer interface [polypeptide binding]; other site 486410003627 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 486410003628 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 486410003629 trmE is a tRNA modification GTPase; Region: trmE; cd04164 486410003630 G1 box; other site 486410003631 GTP/Mg2+ binding site [chemical binding]; other site 486410003632 Switch I region; other site 486410003633 G2 box; other site 486410003634 Switch II region; other site 486410003635 G3 box; other site 486410003636 G4 box; other site 486410003637 G5 box; other site 486410003638 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 486410003639 dipeptidase PepV; Reviewed; Region: PRK07318 486410003640 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 486410003641 active site 486410003642 metal binding site [ion binding]; metal-binding site 486410003643 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 486410003644 dimer interface [polypeptide binding]; other site 486410003645 FMN binding site [chemical binding]; other site 486410003646 potential frameshift: common BLAST hit: gi|116492409|ref|YP_804144.1| pyruvate oxidase 486410003647 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 486410003648 PYR/PP interface [polypeptide binding]; other site 486410003649 dimer interface [polypeptide binding]; other site 486410003650 TPP binding site [chemical binding]; other site 486410003651 potential frameshift: common BLAST hit: gi|125625082|ref|YP_001033565.1| pyruvate oxidase 486410003652 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 486410003653 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 486410003654 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 486410003655 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 486410003656 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 486410003657 GIY-YIG motif/motif A; other site 486410003658 active site 486410003659 catalytic site [active] 486410003660 putative DNA binding site [nucleotide binding]; other site 486410003661 metal binding site [ion binding]; metal-binding site 486410003662 UvrB/uvrC motif; Region: UVR; pfam02151 486410003663 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 486410003664 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 486410003665 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 486410003666 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 486410003667 NAD(P) binding site [chemical binding]; other site 486410003668 catalytic residues [active] 486410003669 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 486410003670 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 486410003671 motif I; other site 486410003672 motif II; other site 486410003673 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 486410003674 dimerization interface [polypeptide binding]; other site 486410003675 putative DNA binding site [nucleotide binding]; other site 486410003676 putative Zn2+ binding site [ion binding]; other site 486410003677 Predicted permeases [General function prediction only]; Region: COG0701 486410003678 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 486410003679 disruption of the gene by probable insertion of unknown sequence; similar to acetyltransferase [Streptococcus pyogenes MGAS5005] 486410003680 Flagellin N-methylase; Region: FliB; pfam03692 486410003681 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 486410003682 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 486410003683 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 486410003684 Response regulator receiver domain; Region: Response_reg; pfam00072 486410003685 active site 486410003686 phosphorylation site [posttranslational modification] 486410003687 intermolecular recognition site; other site 486410003688 dimerization interface [polypeptide binding]; other site 486410003689 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 486410003690 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 486410003691 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 486410003692 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 486410003693 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 486410003694 Histidine kinase; Region: His_kinase; pfam06580 486410003695 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 486410003696 ATP binding site [chemical binding]; other site 486410003697 Mg2+ binding site [ion binding]; other site 486410003698 G-X-G motif; other site 486410003699 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 486410003700 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 486410003701 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3444 486410003702 active site 486410003703 phosphorylation site [posttranslational modification] 486410003704 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 486410003705 active pocket/dimerization site; other site 486410003706 active site 486410003707 phosphorylation site [posttranslational modification] 486410003708 Predicted membrane protein [Function unknown]; Region: COG2855 486410003709 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; cd00741 486410003710 nucleophilic elbow; other site 486410003711 catalytic triad; other site 486410003712 Enterocin A Immunity; Region: EntA_Immun; pfam08951 486410003713 Class II bacteriocin; Region: Bacteriocin_II; pfam01721 486410003714 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 486410003715 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 486410003716 Zn2+ binding site [ion binding]; other site 486410003717 Mg2+ binding site [ion binding]; other site 486410003718 methionine sulfoxide reductase B; Provisional; Region: PRK00222 486410003719 SelR domain; Region: SelR; pfam01641 486410003720 GTP-binding protein LepA; Provisional; Region: PRK05433 486410003721 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 486410003722 G1 box; other site 486410003723 putative GEF interaction site [polypeptide binding]; other site 486410003724 GTP/Mg2+ binding site [chemical binding]; other site 486410003725 Switch I region; other site 486410003726 G2 box; other site 486410003727 G3 box; other site 486410003728 Switch II region; other site 486410003729 G4 box; other site 486410003730 G5 box; other site 486410003731 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 486410003732 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 486410003733 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 486410003734 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 486410003735 active site 486410003736 multimer interface [polypeptide binding]; other site 486410003737 CRISPR/Cas system-associated protein Csn2; Region: Csn2; cd09758 486410003738 CRISPR type II-A/NMEMI-associated protein Csn2; Region: cas_Csn2; TIGR01866 486410003739 tetramer interface [polypeptide binding]; other site 486410003740 putative DNA binding site [nucleotide binding]; other site 486410003741 Ca binding site [ion binding]; other site 486410003742 Ca binding site [ion binding]; other site 486410003743 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 486410003744 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 486410003745 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 486410003746 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 486410003747 CRISPR/Cas system-associated protein Cas9; Region: Csn1; cd09643 486410003748 Predicted membrane protein [Function unknown]; Region: COG4478 486410003749 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 486410003750 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 486410003751 active site 486410003752 motif I; other site 486410003753 motif II; other site 486410003754 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 486410003755 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 486410003756 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 486410003757 active site 486410003758 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 486410003759 active site 2 [active] 486410003760 active site 1 [active] 486410003761 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 486410003762 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 486410003763 FeS/SAM binding site; other site 486410003764 HemN C-terminal domain; Region: HemN_C; pfam06969 486410003765 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 486410003766 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 486410003767 active site 486410003768 substrate binding site [chemical binding]; other site 486410003769 metal binding site [ion binding]; metal-binding site 486410003770 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 486410003771 YbbR-like protein; Region: YbbR; pfam07949 486410003772 Uncharacterized conserved protein [Function unknown]; Region: COG1624 486410003773 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 486410003774 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 486410003775 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 486410003776 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 486410003777 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 486410003778 catalytic triad [active] 486410003779 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 486410003780 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 486410003781 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 486410003782 Predicted membrane protein [Function unknown]; Region: COG4709 486410003783 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 486410003784 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 486410003785 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 486410003786 Predicted transcriptional regulators [Transcription]; Region: COG1695 486410003787 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 486410003788 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 486410003789 E3 interaction surface; other site 486410003790 lipoyl attachment site [posttranslational modification]; other site 486410003791 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 486410003792 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 486410003793 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 486410003794 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 486410003795 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 486410003796 E3 interaction surface; other site 486410003797 lipoyl attachment site [posttranslational modification]; other site 486410003798 e3 binding domain; Region: E3_binding; pfam02817 486410003799 e3 binding domain; Region: E3_binding; pfam02817 486410003800 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 486410003801 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 486410003802 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 486410003803 alpha subunit interface [polypeptide binding]; other site 486410003804 TPP binding site [chemical binding]; other site 486410003805 heterodimer interface [polypeptide binding]; other site 486410003806 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 486410003807 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 486410003808 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 486410003809 tetramer interface [polypeptide binding]; other site 486410003810 TPP-binding site [chemical binding]; other site 486410003811 heterodimer interface [polypeptide binding]; other site 486410003812 phosphorylation loop region [posttranslational modification] 486410003813 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 486410003814 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410003815 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410003816 ABC transporter; Region: ABC_tran_2; pfam12848 486410003817 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410003818 Predicted esterase [General function prediction only]; Region: COG0627 486410003819 S-formylglutathione hydrolase; Region: PLN02442 486410003820 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 486410003821 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 486410003822 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 486410003823 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 486410003824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410003825 Walker A/P-loop; other site 486410003826 ATP binding site [chemical binding]; other site 486410003827 Q-loop/lid; other site 486410003828 ABC transporter signature motif; other site 486410003829 Walker B; other site 486410003830 D-loop; other site 486410003831 H-loop/switch region; other site 486410003832 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 486410003833 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 486410003834 TM-ABC transporter signature motif; other site 486410003835 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 486410003836 zinc binding site [ion binding]; other site 486410003837 putative ligand binding site [chemical binding]; other site 486410003838 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 486410003839 acid phosphatase/phosphotransferase; Provisional; Region: aphA; PRK11009 486410003840 Transposase; Region: HTH_Tnp_1; pfam01527 486410003841 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 486410003842 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 486410003843 Domain of unknown function (DUF814); Region: DUF814; pfam05670 486410003844 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 486410003845 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 486410003846 binding surface 486410003847 TPR motif; other site 486410003848 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 486410003849 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 486410003850 Domain of unknown function DUF20; Region: UPF0118; pfam01594 486410003851 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 486410003852 putative active site [active] 486410003853 nucleotide binding site [chemical binding]; other site 486410003854 nudix motif; other site 486410003855 putative metal binding site [ion binding]; other site 486410003856 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 486410003857 CAAX protease self-immunity; Region: Abi; pfam02517 486410003858 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 486410003859 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 486410003860 NAD binding site [chemical binding]; other site 486410003861 substrate binding site [chemical binding]; other site 486410003862 homodimer interface [polypeptide binding]; other site 486410003863 active site 486410003864 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 486410003865 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 486410003866 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 486410003867 substrate binding site; other site 486410003868 tetramer interface; other site 486410003869 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 486410003870 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 486410003871 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 486410003872 Uncharacterized conserved protein [Function unknown]; Region: COG0327 486410003873 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 486410003874 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 486410003875 Family of unknown function (DUF633); Region: DUF633; pfam04816 486410003876 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 486410003877 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 486410003878 minor groove reading motif; other site 486410003879 helix-hairpin-helix signature motif; other site 486410003880 substrate binding pocket [chemical binding]; other site 486410003881 active site 486410003882 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 486410003883 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 486410003884 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 486410003885 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 486410003886 active site 486410003887 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 486410003888 DHH family; Region: DHH; pfam01368 486410003889 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 486410003890 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 486410003891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 486410003892 NAD(P) binding site [chemical binding]; other site 486410003893 active site 486410003894 ribonuclease Z; Region: RNase_Z; TIGR02651 486410003895 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 486410003896 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 486410003897 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 486410003898 HflX GTPase family; Region: HflX; cd01878 486410003899 G1 box; other site 486410003900 GTP/Mg2+ binding site [chemical binding]; other site 486410003901 Switch I region; other site 486410003902 G2 box; other site 486410003903 G3 box; other site 486410003904 Switch II region; other site 486410003905 G4 box; other site 486410003906 G5 box; other site 486410003907 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 486410003908 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 486410003909 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 486410003910 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 486410003911 gating phenylalanine in ion channel; other site 486410003912 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 486410003913 C-terminal domain interface [polypeptide binding]; other site 486410003914 GSH binding site (G-site) [chemical binding]; other site 486410003915 dimer interface [polypeptide binding]; other site 486410003916 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 486410003917 dimer interface [polypeptide binding]; other site 486410003918 N-terminal domain interface [polypeptide binding]; other site 486410003919 substrate binding pocket (H-site) [chemical binding]; other site 486410003920 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 486410003921 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 486410003922 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 486410003923 active site residue [active] 486410003924 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 486410003925 Stringent starvation protein B; Region: SspB; cl01120 486410003926 Predicted flavoprotein [General function prediction only]; Region: COG0431 486410003927 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 486410003928 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 486410003929 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 486410003930 4-alpha-glucanotransferase; Provisional; Region: PRK14508 486410003931 Transcriptional regulators [Transcription]; Region: PurR; COG1609 486410003932 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 486410003933 DNA binding site [nucleotide binding] 486410003934 domain linker motif; other site 486410003935 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 486410003936 putative dimerization interface [polypeptide binding]; other site 486410003937 putative ligand binding site [chemical binding]; other site 486410003938 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410003939 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410003940 Integrase core domain; Region: rve; pfam00665 486410003941 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 486410003942 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 486410003943 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 486410003944 dimer interface [polypeptide binding]; other site 486410003945 conserved gate region; other site 486410003946 ABC-ATPase subunit interface; other site 486410003947 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 486410003948 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 486410003949 dimer interface [polypeptide binding]; other site 486410003950 conserved gate region; other site 486410003951 putative PBP binding loops; other site 486410003952 ABC-ATPase subunit interface; other site 486410003953 Transcriptional regulators [Transcription]; Region: PurR; COG1609 486410003954 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 486410003955 DNA binding site [nucleotide binding] 486410003956 domain linker motif; other site 486410003957 Predicted integral membrane protein [Function unknown]; Region: COG5521 486410003958 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 486410003959 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 486410003960 dimer interface [polypeptide binding]; other site 486410003961 conserved gate region; other site 486410003962 putative PBP binding loops; other site 486410003963 ABC-ATPase subunit interface; other site 486410003964 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 486410003965 dimer interface [polypeptide binding]; other site 486410003966 conserved gate region; other site 486410003967 ABC-ATPase subunit interface; other site 486410003968 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 486410003969 maltodextrin glucosidase; Provisional; Region: PRK10785 486410003970 homodimer interface [polypeptide binding]; other site 486410003971 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 486410003972 active site 486410003973 homodimer interface [polypeptide binding]; other site 486410003974 catalytic site [active] 486410003975 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 486410003976 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 486410003977 Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltD; COG3966 486410003978 DltD N-terminal region; Region: DltD_N; pfam04915 486410003979 DltD central region; Region: DltD_M; pfam04918 486410003980 DltD C-terminal region; Region: DltD_C; pfam04914 486410003981 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 486410003982 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 486410003983 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 486410003984 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 486410003985 acyl-activating enzyme (AAE) consensus motif; other site 486410003986 AMP binding site [chemical binding]; other site 486410003987 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 486410003988 excinuclease ABC subunit B; Provisional; Region: PRK05298 486410003989 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 486410003990 ATP binding site [chemical binding]; other site 486410003991 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 486410003992 nucleotide binding region [chemical binding]; other site 486410003993 ATP-binding site [chemical binding]; other site 486410003994 Ultra-violet resistance protein B; Region: UvrB; pfam12344 486410003995 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 486410003996 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 486410003997 substrate binding pocket [chemical binding]; other site 486410003998 membrane-bound complex binding site; other site 486410003999 hinge residues; other site 486410004000 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 486410004001 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 486410004002 substrate binding pocket [chemical binding]; other site 486410004003 membrane-bound complex binding site; other site 486410004004 hinge residues; other site 486410004005 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 486410004006 dimer interface [polypeptide binding]; other site 486410004007 conserved gate region; other site 486410004008 putative PBP binding loops; other site 486410004009 ABC-ATPase subunit interface; other site 486410004010 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 486410004011 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 486410004012 Walker A/P-loop; other site 486410004013 ATP binding site [chemical binding]; other site 486410004014 Q-loop/lid; other site 486410004015 ABC transporter signature motif; other site 486410004016 Walker B; other site 486410004017 D-loop; other site 486410004018 H-loop/switch region; other site 486410004019 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 486410004020 GTPase CgtA; Reviewed; Region: obgE; PRK12297 486410004021 GTP1/OBG; Region: GTP1_OBG; pfam01018 486410004022 Obg GTPase; Region: Obg; cd01898 486410004023 G1 box; other site 486410004024 GTP/Mg2+ binding site [chemical binding]; other site 486410004025 Switch I region; other site 486410004026 G2 box; other site 486410004027 G3 box; other site 486410004028 Switch II region; other site 486410004029 G4 box; other site 486410004030 G5 box; other site 486410004031 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 486410004032 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 486410004033 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 486410004034 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 486410004035 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u1; cd12826 486410004036 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 486410004037 Cl binding site [ion binding]; other site 486410004038 oligomer interface [polypeptide binding]; other site 486410004039 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 486410004040 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 486410004041 RNA binding surface [nucleotide binding]; other site 486410004042 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 486410004043 active site 486410004044 uracil binding [chemical binding]; other site 486410004045 Predicted thioesterase [General function prediction only]; Region: COG5496 486410004046 benzoate transport; Region: 2A0115; TIGR00895 486410004047 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 486410004048 putative substrate translocation pore; other site 486410004049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 486410004050 hypothetical protein; Provisional; Region: PRK13663 486410004051 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 486410004052 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 486410004053 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 486410004054 Walker A/P-loop; other site 486410004055 ATP binding site [chemical binding]; other site 486410004056 Q-loop/lid; other site 486410004057 ABC transporter signature motif; other site 486410004058 Walker B; other site 486410004059 D-loop; other site 486410004060 H-loop/switch region; other site 486410004061 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 486410004062 CoenzymeA binding site [chemical binding]; other site 486410004063 subunit interaction site [polypeptide binding]; other site 486410004064 PHB binding site; other site 486410004065 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Provisional; Region: PRK07164 486410004066 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 486410004067 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 486410004068 Transposase; Region: HTH_Tnp_1; pfam01527 486410004069 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 486410004070 putative transposase OrfB; Reviewed; Region: PHA02517 486410004071 HTH-like domain; Region: HTH_21; pfam13276 486410004072 Integrase core domain; Region: rve; pfam00665 486410004073 Integrase core domain; Region: rve_3; pfam13683 486410004074 potential frameshift: common BLAST hit: gi|225871423|ref|YP_002747370.1| antibiotic resistance transporter, ATP-binding protein 486410004075 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 486410004076 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410004077 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 486410004078 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410004079 ABC transporter; Region: ABC_tran_2; pfam12848 486410004080 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 486410004081 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 486410004082 Walker A/P-loop; other site 486410004083 ATP binding site [chemical binding]; other site 486410004084 Q-loop/lid; other site 486410004085 ABC transporter signature motif; other site 486410004086 Walker B; other site 486410004087 D-loop; other site 486410004088 H-loop/switch region; other site 486410004089 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 486410004090 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 486410004091 non-specific DNA binding site [nucleotide binding]; other site 486410004092 salt bridge; other site 486410004093 sequence-specific DNA binding site [nucleotide binding]; other site 486410004094 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 486410004095 Lantibiotic streptin immunity protein; Region: Streptin-Immun; pfam11083 486410004096 Transposase; Region: HTH_Tnp_1; pfam01527 486410004097 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 486410004098 putative transposase OrfB; Reviewed; Region: PHA02517 486410004099 HTH-like domain; Region: HTH_21; pfam13276 486410004100 Integrase core domain; Region: rve; pfam00665 486410004101 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 486410004102 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 486410004103 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 486410004104 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 486410004105 non-specific DNA binding site [nucleotide binding]; other site 486410004106 salt bridge; other site 486410004107 sequence-specific DNA binding site [nucleotide binding]; other site 486410004108 MobA/MobL family; Region: MobA_MobL; pfam03389 486410004109 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 486410004110 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 486410004111 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 486410004112 putative catalytic residues [active] 486410004113 catalytic nucleophile [active] 486410004114 Recombinase; Region: Recombinase; pfam07508 486410004115 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 486410004116 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 486410004117 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 486410004118 hypothetical protein; Validated; Region: PRK08116 486410004119 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 486410004120 Walker A motif; other site 486410004121 ATP binding site [chemical binding]; other site 486410004122 Walker B motif; other site 486410004123 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 486410004124 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 486410004125 TRAM domain; Region: TRAM; pfam01938 486410004126 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 486410004127 S-adenosylmethionine binding site [chemical binding]; other site 486410004128 Transcriptional regulator [Transcription]; Region: LytR; COG1316 486410004129 shikimate kinase; Reviewed; Region: aroK; PRK00131 486410004130 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 486410004131 ADP binding site [chemical binding]; other site 486410004132 magnesium binding site [ion binding]; other site 486410004133 putative shikimate binding site; other site 486410004134 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 486410004135 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 486410004136 hinge; other site 486410004137 active site 486410004138 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 486410004139 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 486410004140 active site 486410004141 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 486410004142 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 486410004143 DNA-binding site [nucleotide binding]; DNA binding site 486410004144 DRTGG domain; Region: DRTGG; pfam07085 486410004145 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 486410004146 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 486410004147 active site 2 [active] 486410004148 active site 1 [active] 486410004149 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 486410004150 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 486410004151 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 486410004152 GA module; Region: GA; cl08325 486410004153 GA module; Region: GA; pfam01468 486410004154 GA module; Region: GA; pfam01468 486410004155 B domain; Region: IgG_binding_B; pfam01378 486410004156 B domain; Region: IgG_binding_B; pfam01378 486410004157 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 486410004158 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 486410004159 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 486410004160 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 486410004161 motif II; other site 486410004162 D-mannonate oxidoreductase; Provisional; Region: PRK08277 486410004163 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 486410004164 putative NAD(P) binding site [chemical binding]; other site 486410004165 active site 486410004166 mannonate dehydratase; Provisional; Region: PRK03906 486410004167 mannonate dehydratase; Region: uxuA; TIGR00695 486410004168 Glucuronate isomerase; Region: UxaC; pfam02614 486410004169 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 486410004170 Glucuronate isomerase; Region: UxaC; cl00829 486410004171 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 486410004172 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 486410004173 active site 486410004174 intersubunit interface [polypeptide binding]; other site 486410004175 catalytic residue [active] 486410004176 Transcriptional regulators [Transcription]; Region: FadR; COG2186 486410004177 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 486410004178 DNA-binding site [nucleotide binding]; DNA binding site 486410004179 FCD domain; Region: FCD; pfam07729 486410004180 beta-D-glucuronidase; Provisional; Region: PRK10150 486410004181 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 486410004182 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 486410004183 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 486410004184 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 486410004185 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 486410004186 substrate binding site [chemical binding]; other site 486410004187 ATP binding site [chemical binding]; other site 486410004188 MFS/sugar transport protein; Region: MFS_2; pfam13347 486410004189 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 486410004190 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 486410004191 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 486410004192 hinge; other site 486410004193 active site 486410004194 S-adenosylmethionine synthetase; Validated; Region: PRK05250 486410004195 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 486410004196 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 486410004197 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 486410004198 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 486410004199 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 486410004200 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 486410004201 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 486410004202 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 486410004203 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 486410004204 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 486410004205 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 486410004206 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 486410004207 Biotin operon repressor [Transcription]; Region: BirA; COG1654 486410004208 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 486410004209 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 486410004210 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 486410004211 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 486410004212 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 486410004213 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 486410004214 Walker A motif; other site 486410004215 ATP binding site [chemical binding]; other site 486410004216 Walker B motif; other site 486410004217 arginine finger; other site 486410004218 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 486410004219 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 486410004220 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 486410004221 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 486410004222 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 486410004223 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 486410004224 Sugar specificity; other site 486410004225 Pyrimidine base specificity; other site 486410004226 ATP-binding site [chemical binding]; other site 486410004227 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 486410004228 DEAD-like helicases superfamily; Region: DEXDc; smart00487 486410004229 ATP binding site [chemical binding]; other site 486410004230 putative Mg++ binding site [ion binding]; other site 486410004231 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 486410004232 nucleotide binding region [chemical binding]; other site 486410004233 ATP-binding site [chemical binding]; other site 486410004234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 486410004235 Helix-turn-helix domain; Region: HTH_28; pfam13518 486410004236 potential frameshift: common BLAST hit: gi|28895758|ref|NP_802108.1| transposase, IS861 486410004237 HTH-like domain; Region: HTH_21; pfam13276 486410004238 Integrase core domain; Region: rve; pfam00665 486410004239 Integrase core domain; Region: rve; pfam00665 486410004240 Integrase core domain; Region: rve_2; pfam13333 486410004241 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 486410004242 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 486410004243 active site 486410004244 motif I; other site 486410004245 motif II; other site 486410004246 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 486410004247 Predicted membrane protein [Function unknown]; Region: COG2364 486410004248 6-phospho-beta-glucosidase; Reviewed; Region: arb; PRK09593 486410004249 beta-galactosidase; Region: BGL; TIGR03356 486410004250 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 486410004251 catalytic core [active] 486410004252 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 486410004253 catalytic core [active] 486410004254 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 486410004255 catalytic core [active] 486410004256 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 486410004257 potential frameshift: common BLAST hit: gi|222152991|ref|YP_002562168.1| 6-phospho-beta-glucosidase 4 486410004258 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 486410004259 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 486410004260 maltose O-acetyltransferase; Provisional; Region: PRK10092 486410004261 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 486410004262 trimer interface [polypeptide binding]; other site 486410004263 active site 486410004264 substrate binding site [chemical binding]; other site 486410004265 CoA binding site [chemical binding]; other site 486410004266 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 486410004267 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 486410004268 active site 486410004269 motif I; other site 486410004270 motif II; other site 486410004271 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 486410004272 Uncharacterized conserved protein [Function unknown]; Region: COG3589 486410004273 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 486410004274 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 486410004275 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 486410004276 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 486410004277 methionine cluster; other site 486410004278 active site 486410004279 phosphorylation site [posttranslational modification] 486410004280 metal binding site [ion binding]; metal-binding site 486410004281 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 486410004282 HTH domain; Region: HTH_11; pfam08279 486410004283 Mga helix-turn-helix domain; Region: Mga; pfam05043 486410004284 PRD domain; Region: PRD; pfam00874 486410004285 PRD domain; Region: PRD; pfam00874 486410004286 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 486410004287 active site 486410004288 P-loop; other site 486410004289 phosphorylation site [posttranslational modification] 486410004290 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 486410004291 active site 486410004292 phosphorylation site [posttranslational modification] 486410004293 cellobiose phosphotransferase system IIB component; Reviewed; Region: celB; PRK09590 486410004294 active site 486410004295 P-loop; other site 486410004296 phosphorylation site [posttranslational modification] 486410004297 HTH-like domain; Region: HTH_21; pfam13276 486410004298 Integrase core domain; Region: rve; pfam00665 486410004299 Integrase core domain; Region: rve_3; pfam13683 486410004300 Transposase; Region: HTH_Tnp_1; pfam01527 486410004301 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 486410004302 Transposase, Mutator family; Region: Transposase_mut; pfam00872 486410004303 MULE transposase domain; Region: MULE; pfam10551 486410004304 Transposase; Region: DDE_Tnp_ISL3; pfam01610 486410004305 Uncharacterized conserved protein [Function unknown]; Region: COG4095 486410004306 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 486410004307 beta-galactosidase; Region: BGL; TIGR03356 486410004308 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 486410004309 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 486410004310 ligand binding site [chemical binding]; other site 486410004311 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 486410004312 putative active site [active] 486410004313 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 486410004314 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 486410004315 active site 486410004316 motif I; other site 486410004317 motif II; other site 486410004318 putative oxidoreductase; Provisional; Region: PRK10206 486410004319 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 486410004320 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 486410004321 beta-galactosidase; Region: BGL; TIGR03356 486410004322 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 486410004323 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 486410004324 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 486410004325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 486410004326 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 486410004327 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 486410004328 active site turn [active] 486410004329 phosphorylation site [posttranslational modification] 486410004330 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 486410004331 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 486410004332 HPr interaction site; other site 486410004333 glycerol kinase (GK) interaction site [polypeptide binding]; other site 486410004334 active site 486410004335 phosphorylation site [posttranslational modification] 486410004336 transcriptional antiterminator BglG; Provisional; Region: PRK09772 486410004337 CAT RNA binding domain; Region: CAT_RBD; smart01061 486410004338 PRD domain; Region: PRD; pfam00874 486410004339 PRD domain; Region: PRD; pfam00874 486410004340 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 486410004341 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 486410004342 Walker A/P-loop; other site 486410004343 ATP binding site [chemical binding]; other site 486410004344 Q-loop/lid; other site 486410004345 ABC transporter signature motif; other site 486410004346 Walker B; other site 486410004347 D-loop; other site 486410004348 H-loop/switch region; other site 486410004349 Integrase core domain; Region: rve; pfam00665 486410004350 Integrase core domain; Region: rve_2; pfam13333 486410004351 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 486410004352 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 486410004353 NodB motif; other site 486410004354 active site 486410004355 catalytic site [active] 486410004356 Zn binding site [ion binding]; other site 486410004357 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 486410004358 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 486410004359 tetrameric interface [polypeptide binding]; other site 486410004360 activator binding site; other site 486410004361 NADP binding site [chemical binding]; other site 486410004362 substrate binding site [chemical binding]; other site 486410004363 catalytic residues [active] 486410004364 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 486410004365 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 486410004366 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 486410004367 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 486410004368 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 486410004369 dimerization domain swap beta strand [polypeptide binding]; other site 486410004370 regulatory protein interface [polypeptide binding]; other site 486410004371 active site 486410004372 regulatory phosphorylation site [posttranslational modification]; other site 486410004373 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 486410004374 catalytic residues [active] 486410004375 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 486410004376 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 486410004377 Class I ribonucleotide reductase; Region: RNR_I; cd01679 486410004378 active site 486410004379 dimer interface [polypeptide binding]; other site 486410004380 catalytic residues [active] 486410004381 effector binding site; other site 486410004382 R2 peptide binding site; other site 486410004383 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 486410004384 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 486410004385 dimer interface [polypeptide binding]; other site 486410004386 putative radical transfer pathway; other site 486410004387 diiron center [ion binding]; other site 486410004388 tyrosyl radical; other site 486410004389 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 486410004390 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 486410004391 putative ion selectivity filter; other site 486410004392 putative pore gating glutamate residue; other site 486410004393 CAAX protease self-immunity; Region: Abi; pfam02517 486410004394 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 486410004395 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 486410004396 non-specific DNA binding site [nucleotide binding]; other site 486410004397 salt bridge; other site 486410004398 sequence-specific DNA binding site [nucleotide binding]; other site 486410004399 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 486410004400 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 486410004401 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 486410004402 motif 1; other site 486410004403 active site 486410004404 motif 2; other site 486410004405 motif 3; other site 486410004406 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 486410004407 DHHA1 domain; Region: DHHA1; pfam02272 486410004408 Tubby C 2; Region: Tub_2; cl02043 486410004409 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 486410004410 GH3 auxin-responsive promoter; Region: GH3; pfam03321 486410004411 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 486410004412 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 486410004413 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 486410004414 S-adenosylmethionine binding site [chemical binding]; other site 486410004415 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 486410004416 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 486410004417 putative substrate translocation pore; other site 486410004418 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 486410004419 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 486410004420 motif II; other site 486410004421 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 486410004422 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 486410004423 Coenzyme A binding pocket [chemical binding]; other site 486410004424 Predicted flavoprotein [General function prediction only]; Region: COG0431 486410004425 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 486410004426 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 486410004427 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 486410004428 active site 486410004429 Zn binding site [ion binding]; other site 486410004430 Competence protein CoiA-like family; Region: CoiA; cl11541 486410004431 potential frameshift: common BLAST hit: gi|222153365|ref|YP_002562542.1| major facilitator superfamily protein 486410004432 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 486410004433 Major Facilitator Superfamily; Region: MFS_1; pfam07690 486410004434 putative substrate translocation pore; other site 486410004435 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 486410004436 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 486410004437 RNA binding surface [nucleotide binding]; other site 486410004438 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 486410004439 active site 486410004440 uracil binding [chemical binding]; other site 486410004441 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 486410004442 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 486410004443 active site 486410004444 trimer interface [polypeptide binding]; other site 486410004445 allosteric site; other site 486410004446 active site lid [active] 486410004447 hexamer (dimer of trimers) interface [polypeptide binding]; other site 486410004448 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 486410004449 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 486410004450 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 486410004451 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 486410004452 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 486410004453 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 486410004454 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 486410004455 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 486410004456 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 486410004457 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 486410004458 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 486410004459 Competence protein; Region: Competence; pfam03772 486410004460 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 486410004461 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 486410004462 SLBB domain; Region: SLBB; pfam10531 486410004463 comEA protein; Region: comE; TIGR01259 486410004464 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 486410004465 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 486410004466 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 486410004467 putative acyl-acceptor binding pocket; other site 486410004468 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 486410004469 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 486410004470 S-adenosylmethionine binding site [chemical binding]; other site 486410004471 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 486410004472 GIY-YIG motif/motif A; other site 486410004473 putative active site [active] 486410004474 putative metal binding site [ion binding]; other site 486410004475 K+ potassium transporter; Region: K_trans; cl15781 486410004476 helicase 45; Provisional; Region: PTZ00424 486410004477 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 486410004478 ATP binding site [chemical binding]; other site 486410004479 Mg++ binding site [ion binding]; other site 486410004480 motif III; other site 486410004481 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 486410004482 nucleotide binding region [chemical binding]; other site 486410004483 ATP-binding site [chemical binding]; other site 486410004484 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 486410004485 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 486410004486 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 486410004487 dimer interface [polypeptide binding]; other site 486410004488 conserved gate region; other site 486410004489 putative PBP binding loops; other site 486410004490 ABC-ATPase subunit interface; other site 486410004491 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 486410004492 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410004493 Walker A/P-loop; other site 486410004494 ATP binding site [chemical binding]; other site 486410004495 Q-loop/lid; other site 486410004496 ABC transporter signature motif; other site 486410004497 Walker B; other site 486410004498 D-loop; other site 486410004499 H-loop/switch region; other site 486410004500 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 486410004501 pentamer interface [polypeptide binding]; other site 486410004502 dodecaamer interface [polypeptide binding]; other site 486410004503 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 486410004504 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 486410004505 G1 box; other site 486410004506 putative GEF interaction site [polypeptide binding]; other site 486410004507 GTP/Mg2+ binding site [chemical binding]; other site 486410004508 Switch I region; other site 486410004509 G2 box; other site 486410004510 G3 box; other site 486410004511 Switch II region; other site 486410004512 G4 box; other site 486410004513 G5 box; other site 486410004514 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 486410004515 conserved hypothetical integral membrane protein TIGR02206; Region: intg_mem_TP0381 486410004516 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 486410004517 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 486410004518 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 486410004519 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 486410004520 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 486410004521 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 486410004522 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 486410004523 recombination protein RecR; Reviewed; Region: recR; PRK00076 486410004524 RecR protein; Region: RecR; pfam02132 486410004525 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 486410004526 putative active site [active] 486410004527 putative metal-binding site [ion binding]; other site 486410004528 tetramer interface [polypeptide binding]; other site 486410004529 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 486410004530 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 486410004531 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 486410004532 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 486410004533 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 486410004534 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 486410004535 HTH domain; Region: HTH_11; pfam08279 486410004536 3H domain; Region: 3H; pfam02829 486410004537 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 486410004538 catalytic core [active] 486410004539 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 486410004540 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410004541 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410004542 Integrase core domain; Region: rve; pfam00665 486410004543 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 486410004544 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 486410004545 active site 486410004546 FMN binding site [chemical binding]; other site 486410004547 substrate binding site [chemical binding]; other site 486410004548 catalytic residues [active] 486410004549 homodimer interface [polypeptide binding]; other site 486410004550 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 486410004551 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 486410004552 Soluble P-type ATPase [General function prediction only]; Region: COG4087 486410004553 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 486410004554 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 486410004555 non-specific DNA binding site [nucleotide binding]; other site 486410004556 salt bridge; other site 486410004557 sequence-specific DNA binding site [nucleotide binding]; other site 486410004558 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 486410004559 H+ Antiporter protein; Region: 2A0121; TIGR00900 486410004560 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 486410004561 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 486410004562 IHF dimer interface [polypeptide binding]; other site 486410004563 IHF - DNA interface [nucleotide binding]; other site 486410004564 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4698 486410004565 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 486410004566 active site 486410004567 catalytic triad [active] 486410004568 oxyanion hole [active] 486410004569 EDD domain protein, DegV family; Region: DegV; TIGR00762 486410004570 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 486410004571 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 486410004572 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 486410004573 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 486410004574 Walker A/P-loop; other site 486410004575 ATP binding site [chemical binding]; other site 486410004576 Q-loop/lid; other site 486410004577 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 486410004578 ABC transporter signature motif; other site 486410004579 Walker B; other site 486410004580 D-loop; other site 486410004581 H-loop/switch region; other site 486410004582 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 486410004583 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 486410004584 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 486410004585 RNA binding surface [nucleotide binding]; other site 486410004586 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 486410004587 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 486410004588 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 486410004589 substrate binding pocket [chemical binding]; other site 486410004590 chain length determination region; other site 486410004591 substrate-Mg2+ binding site; other site 486410004592 catalytic residues [active] 486410004593 aspartate-rich region 1; other site 486410004594 active site lid residues [active] 486410004595 aspartate-rich region 2; other site 486410004596 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 486410004597 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 486410004598 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 486410004599 generic binding surface II; other site 486410004600 generic binding surface I; other site 486410004601 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 486410004602 putative substrate binding site [chemical binding]; other site 486410004603 putative ATP binding site [chemical binding]; other site 486410004604 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 486410004605 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 486410004606 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 486410004607 homodimer interface [polypeptide binding]; other site 486410004608 NADP binding site [chemical binding]; other site 486410004609 substrate binding site [chemical binding]; other site 486410004610 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 486410004611 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 486410004612 active site 486410004613 substrate binding site [chemical binding]; other site 486410004614 metal binding site [ion binding]; metal-binding site 486410004615 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 486410004616 DNA photolyase; Region: DNA_photolyase; pfam00875 486410004617 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 486410004618 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 486410004619 G1 box; other site 486410004620 GTP/Mg2+ binding site [chemical binding]; other site 486410004621 Switch I region; other site 486410004622 G2 box; other site 486410004623 G3 box; other site 486410004624 Switch II region; other site 486410004625 G4 box; other site 486410004626 G5 box; other site 486410004627 Nucleoside recognition; Region: Gate; pfam07670 486410004628 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 486410004629 Nucleoside recognition; Region: Gate; pfam07670 486410004630 FeoA domain; Region: FeoA; pfam04023 486410004631 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 486410004632 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 486410004633 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 486410004634 Walker A/P-loop; other site 486410004635 ATP binding site [chemical binding]; other site 486410004636 Q-loop/lid; other site 486410004637 ABC transporter signature motif; other site 486410004638 Walker B; other site 486410004639 D-loop; other site 486410004640 H-loop/switch region; other site 486410004641 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 486410004642 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 486410004643 dimer interface [polypeptide binding]; other site 486410004644 conserved gate region; other site 486410004645 putative PBP binding loops; other site 486410004646 ABC-ATPase subunit interface; other site 486410004647 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 486410004648 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 486410004649 Walker A motif; other site 486410004650 ATP binding site [chemical binding]; other site 486410004651 Walker B motif; other site 486410004652 arginine finger; other site 486410004653 UvrB/uvrC motif; Region: UVR; pfam02151 486410004654 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 486410004655 Walker A motif; other site 486410004656 ATP binding site [chemical binding]; other site 486410004657 Walker B motif; other site 486410004658 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 486410004659 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 486410004660 nudix motif; other site 486410004661 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 486410004662 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 486410004663 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 486410004664 active site 486410004665 HIGH motif; other site 486410004666 nucleotide binding site [chemical binding]; other site 486410004667 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 486410004668 active site 486410004669 KMSKS motif; other site 486410004670 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 486410004671 tRNA binding surface [nucleotide binding]; other site 486410004672 anticodon binding site; other site 486410004673 DivIVA protein; Region: DivIVA; pfam05103 486410004674 DivIVA domain; Region: DivI1A_domain; TIGR03544 486410004675 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 486410004676 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 486410004677 RNA binding surface [nucleotide binding]; other site 486410004678 YGGT family; Region: YGGT; pfam02325 486410004679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 486410004680 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 486410004681 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 486410004682 catalytic residue [active] 486410004683 cell division protein FtsZ; Validated; Region: PRK09330 486410004684 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 486410004685 nucleotide binding site [chemical binding]; other site 486410004686 SulA interaction site; other site 486410004687 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 486410004688 Cell division protein FtsA; Region: FtsA; smart00842 486410004689 Cell division protein FtsA; Region: FtsA; pfam14450 486410004690 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 486410004691 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 486410004692 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 486410004693 Cell division protein FtsQ; Region: FtsQ; pfam03799 486410004694 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 486410004695 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 486410004696 homodimer interface [polypeptide binding]; other site 486410004697 active site 486410004698 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 486410004699 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 486410004700 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 486410004701 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 486410004702 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 486410004703 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 486410004704 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 486410004705 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 486410004706 G1 box; other site 486410004707 putative GEF interaction site [polypeptide binding]; other site 486410004708 GTP/Mg2+ binding site [chemical binding]; other site 486410004709 Switch I region; other site 486410004710 G2 box; other site 486410004711 G3 box; other site 486410004712 Switch II region; other site 486410004713 G4 box; other site 486410004714 G5 box; other site 486410004715 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 486410004716 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 486410004717 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 486410004718 active site residue [active] 486410004719 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 486410004720 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 486410004721 nucleotide binding site [chemical binding]; other site 486410004722 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 486410004723 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 486410004724 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 486410004725 dimerization interface [polypeptide binding]; other site 486410004726 DPS ferroxidase diiron center [ion binding]; other site 486410004727 ion pore; other site 486410004728 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 486410004729 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 486410004730 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 486410004731 active site 486410004732 phosphorylation site [posttranslational modification] 486410004733 intermolecular recognition site; other site 486410004734 dimerization interface [polypeptide binding]; other site 486410004735 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 486410004736 DNA binding residues [nucleotide binding] 486410004737 dimerization interface [polypeptide binding]; other site 486410004738 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 486410004739 Histidine kinase; Region: HisKA_3; pfam07730 486410004740 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 486410004741 ATP binding site [chemical binding]; other site 486410004742 Mg2+ binding site [ion binding]; other site 486410004743 G-X-G motif; other site 486410004744 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 486410004745 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 486410004746 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 486410004747 Walker A/P-loop; other site 486410004748 ATP binding site [chemical binding]; other site 486410004749 Q-loop/lid; other site 486410004750 ABC transporter signature motif; other site 486410004751 Walker B; other site 486410004752 D-loop; other site 486410004753 H-loop/switch region; other site 486410004754 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 486410004755 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410004756 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 486410004757 Walker A/P-loop; other site 486410004758 ATP binding site [chemical binding]; other site 486410004759 Q-loop/lid; other site 486410004760 ABC transporter signature motif; other site 486410004761 Walker B; other site 486410004762 D-loop; other site 486410004763 H-loop/switch region; other site 486410004764 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410004765 ABC transporter signature motif; other site 486410004766 Walker B; other site 486410004767 D-loop; other site 486410004768 H-loop/switch region; other site 486410004769 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410004770 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 486410004771 Walker A/P-loop; other site 486410004772 ATP binding site [chemical binding]; other site 486410004773 Q-loop/lid; other site 486410004774 VanZ like family; Region: VanZ; pfam04892 486410004775 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 486410004776 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 486410004777 FeS/SAM binding site; other site 486410004778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 486410004779 potential frameshift: common BLAST hit: gi|226307938|ref|YP_002767898.1| oxidoreductase 486410004780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 486410004781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 486410004782 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 486410004783 NAD(P) binding site [chemical binding]; other site 486410004784 active site 486410004785 potential frameshift: common BLAST hit: gi|150389901|ref|YP_001319950.1| transposase IS116/IS110/IS902 family protein 486410004786 Transposase; Region: DEDD_Tnp_IS110; pfam01548 486410004787 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 486410004788 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 486410004789 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 486410004790 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 486410004791 ligand binding site [chemical binding]; other site 486410004792 dimerization interface [polypeptide binding]; other site 486410004793 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 486410004794 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 486410004795 Walker A/P-loop; other site 486410004796 ATP binding site [chemical binding]; other site 486410004797 Q-loop/lid; other site 486410004798 D-ribose pyranase; Provisional; Region: PRK11797 486410004799 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 486410004800 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 486410004801 substrate binding site [chemical binding]; other site 486410004802 dimer interface [polypeptide binding]; other site 486410004803 ATP binding site [chemical binding]; other site 486410004804 Transcriptional regulators [Transcription]; Region: PurR; COG1609 486410004805 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 486410004806 DNA binding site [nucleotide binding] 486410004807 domain linker motif; other site 486410004808 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 486410004809 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 486410004810 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 486410004811 protein binding site [polypeptide binding]; other site 486410004812 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 486410004813 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 486410004814 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 486410004815 active site 486410004816 (T/H)XGH motif; other site 486410004817 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 486410004818 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 486410004819 S-adenosylmethionine binding site [chemical binding]; other site 486410004820 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 486410004821 dimer interface [polypeptide binding]; other site 486410004822 active site 486410004823 carbamate kinase; Reviewed; Region: PRK12686 486410004824 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 486410004825 putative substrate binding site [chemical binding]; other site 486410004826 nucleotide binding site [chemical binding]; other site 486410004827 nucleotide binding site [chemical binding]; other site 486410004828 homodimer interface [polypeptide binding]; other site 486410004829 Transposase; Region: DEDD_Tnp_IS110; pfam01548 486410004830 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 486410004831 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 486410004832 hypothetical protein; Provisional; Region: PRK07205 486410004833 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 486410004834 active site 486410004835 metal binding site [ion binding]; metal-binding site 486410004836 Predicted membrane protein [Function unknown]; Region: COG1288 486410004837 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 486410004838 ornithine carbamoyltransferase; Validated; Region: PRK02102 486410004839 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 486410004840 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 486410004841 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 486410004842 Coenzyme A binding pocket [chemical binding]; other site 486410004843 arginine deiminase; Provisional; Region: PRK01388 486410004844 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 486410004845 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 486410004846 ligand binding site [chemical binding]; other site 486410004847 flexible hinge region; other site 486410004848 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 486410004849 putative switch regulator; other site 486410004850 non-specific DNA interactions [nucleotide binding]; other site 486410004851 DNA binding site [nucleotide binding] 486410004852 sequence specific DNA binding site [nucleotide binding]; other site 486410004853 putative cAMP binding site [chemical binding]; other site 486410004854 Arginine repressor [Transcription]; Region: ArgR; COG1438 486410004855 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 486410004856 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 486410004857 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 486410004858 B3/4 domain; Region: B3_4; pfam03483 486410004859 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 486410004860 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 486410004861 Cache domain; Region: Cache_1; pfam02743 486410004862 HAMP domain; Region: HAMP; pfam00672 486410004863 Histidine kinase; Region: His_kinase; pfam06580 486410004864 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 486410004865 ATP binding site [chemical binding]; other site 486410004866 Mg2+ binding site [ion binding]; other site 486410004867 G-X-G motif; other site 486410004868 Response regulator receiver domain; Region: Response_reg; pfam00072 486410004869 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 486410004870 active site 486410004871 phosphorylation site [posttranslational modification] 486410004872 intermolecular recognition site; other site 486410004873 dimerization interface [polypeptide binding]; other site 486410004874 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 486410004875 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 486410004876 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 486410004877 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 486410004878 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 486410004879 SelR domain; Region: SelR; pfam01641 486410004880 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 486410004881 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 486410004882 catalytic residues [active] 486410004883 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 486410004884 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 486410004885 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 486410004886 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 486410004887 Cl binding site [ion binding]; other site 486410004888 oligomer interface [polypeptide binding]; other site 486410004889 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 486410004890 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 486410004891 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 486410004892 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 486410004893 active site 486410004894 HIGH motif; other site 486410004895 nucleotide binding site [chemical binding]; other site 486410004896 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 486410004897 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 486410004898 active site 486410004899 KMSKS motif; other site 486410004900 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 486410004901 tRNA binding surface [nucleotide binding]; other site 486410004902 anticodon binding site; other site 486410004903 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 486410004904 AAA domain; Region: AAA_18; pfam13238 486410004905 AAA domain; Region: AAA_17; pfam13207 486410004906 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 486410004907 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 486410004908 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_6; cd07242 486410004909 putative dimer interface [polypeptide binding]; other site 486410004910 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 486410004911 ligand binding site [chemical binding]; other site 486410004912 Zn binding site [ion binding]; other site 486410004913 hypothetical protein; Provisional; Region: PRK07758 486410004914 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 486410004915 Transcriptional regulators [Transcription]; Region: MarR; COG1846 486410004916 MarR family; Region: MarR; pfam01047 486410004917 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 486410004918 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 486410004919 3-deoxy-7-phosphoheptulonate synthase; Provisional; Region: PRK13397 486410004920 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 486410004921 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 486410004922 active site 486410004923 dimer interface [polypeptide binding]; other site 486410004924 metal binding site [ion binding]; metal-binding site 486410004925 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 486410004926 Membrane transport protein; Region: Mem_trans; cl09117 486410004927 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 486410004928 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 486410004929 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 486410004930 shikimate binding site; other site 486410004931 NAD(P) binding site [chemical binding]; other site 486410004932 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 486410004933 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 486410004934 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 486410004935 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 486410004936 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 486410004937 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 486410004938 active site 486410004939 phosphorylation site [posttranslational modification] 486410004940 intermolecular recognition site; other site 486410004941 dimerization interface [polypeptide binding]; other site 486410004942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 486410004943 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 486410004944 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 486410004945 Histidine kinase; Region: His_kinase; pfam06580 486410004946 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 486410004947 ATP binding site [chemical binding]; other site 486410004948 Mg2+ binding site [ion binding]; other site 486410004949 G-X-G motif; other site 486410004950 Predicted integral membrane protein [Function unknown]; Region: COG5578 486410004951 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 486410004952 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 486410004953 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 486410004954 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 486410004955 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 486410004956 dimer interface [polypeptide binding]; other site 486410004957 conserved gate region; other site 486410004958 putative PBP binding loops; other site 486410004959 ABC-ATPase subunit interface; other site 486410004960 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 486410004961 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 486410004962 putative PBP binding loops; other site 486410004963 dimer interface [polypeptide binding]; other site 486410004964 ABC-ATPase subunit interface; other site 486410004965 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 486410004966 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 486410004967 nucleotide binding site [chemical binding]; other site 486410004968 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 486410004969 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 486410004970 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 486410004971 beta-galactosidase; Region: BGL; TIGR03356 486410004972 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 486410004973 Transcriptional regulators [Transcription]; Region: FadR; COG2186 486410004974 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 486410004975 DNA-binding site [nucleotide binding]; DNA binding site 486410004976 Transcriptional regulators [Transcription]; Region: PurR; COG1609 486410004977 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 486410004978 ligand binding site [chemical binding]; other site 486410004979 dimerization interface [polypeptide binding]; other site 486410004980 Uncharacterized conserved protein [Function unknown]; Region: COG3538 486410004981 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 486410004982 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 486410004983 N-terminal catalytic domain of SPGH38, a putative alpha-mannosidase of Streptococcus pyogenes, and its prokaryotic homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_SpGH38_like; cd10814 486410004984 active site 486410004985 metal binding site [ion binding]; metal-binding site 486410004986 homodimer interface [polypeptide binding]; other site 486410004987 catalytic site [active] 486410004988 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 486410004989 ParB-like nuclease domain; Region: ParB; smart00470 486410004990 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 486410004991 DM4/DM12 family; Region: DM4_12; cl11657 486410004992 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 486410004993 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 486410004994 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 486410004995 acyl-CoA synthetase; Validated; Region: PRK08316 486410004996 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 486410004997 acyl-activating enzyme (AAE) consensus motif; other site 486410004998 AMP binding site [chemical binding]; other site 486410004999 active site 486410005000 CoA binding site [chemical binding]; other site 486410005001 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 486410005002 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 486410005003 FMN binding site [chemical binding]; other site 486410005004 substrate binding site [chemical binding]; other site 486410005005 putative catalytic residue [active] 486410005006 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 486410005007 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 486410005008 dimer interface [polypeptide binding]; other site 486410005009 active site 486410005010 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 486410005011 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 486410005012 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 486410005013 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 486410005014 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 486410005015 enoyl-CoA hydratase; Region: PLN02600 486410005016 substrate binding site [chemical binding]; other site 486410005017 oxyanion hole (OAH) forming residues; other site 486410005018 trimer interface [polypeptide binding]; other site 486410005019 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 486410005020 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 486410005021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410005022 Walker A/P-loop; other site 486410005023 ATP binding site [chemical binding]; other site 486410005024 Q-loop/lid; other site 486410005025 ABC transporter signature motif; other site 486410005026 Walker B; other site 486410005027 D-loop; other site 486410005028 H-loop/switch region; other site 486410005029 TRAM domain; Region: TRAM; pfam01938 486410005030 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 486410005031 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 486410005032 S-adenosylmethionine binding site [chemical binding]; other site 486410005033 Pre-pro-megakaryocyte potentiating factor precursor (Mesothelin); Region: Mesothelin; pfam06060 486410005034 AP2 domain; Region: AP2; pfam00847 486410005035 Bacteriophage peptidoglycan hydrolase; Region: Amidase_5; pfam05382 486410005036 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; cl07020 486410005037 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; smart01095 486410005038 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 486410005039 Phage holin protein (Holin_LLH); Region: Holin_LLH; pfam09682 486410005040 Protein of unknown function (DUF1366); Region: DUF1366; pfam07104 486410005041 Siphovirus protein of unknown function (DUF859); Region: DUF859; pfam05895 486410005042 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 486410005043 CHAP domain; Region: CHAP; cl17642 486410005044 Phage tail protein; Region: Sipho_tail; pfam05709 486410005045 Phage tail protein; Region: Sipho_tail; cl17486 486410005046 Phage-related protein [Function unknown]; Region: COG5412 486410005047 NUMOD4 motif; Region: NUMOD4; pfam07463 486410005048 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 486410005049 active site 486410005050 GIYX(10-11)YIG family of class I homing endonucleases C-terminus (GIY-YIG_Cterm). Homing endonucleases promote the mobility of intron or intein by recognizing and cleaving a homologous allele that lacks the sequence. They catalyze a double-strand break...; Region: GIY-YIG_Cterm; cl11508 486410005051 Poxvirus virion envelope protein A14; Region: Pox_A14; cl17336 486410005052 Phage major tail protein 2; Region: Phage_tail_2; cl11463 486410005053 limonoid glucosyltransferase; Region: PLN02555 486410005054 Phage gp6-like head-tail connector protein; Region: Phage_connect_1; pfam05135 486410005055 HeH/LEM domain; Region: HeH; pfam12949 486410005056 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 486410005057 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 486410005058 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 486410005059 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 486410005060 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 486410005061 Phage terminase large subunit; Region: Terminase_3; cl12054 486410005062 Terminase-like family; Region: Terminase_6; pfam03237 486410005063 Bacteriophage CII protein; Region: Phage_CII; pfam05269 486410005064 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 486410005065 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 486410005066 YopX protein; Region: YopX; pfam09643 486410005067 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 486410005068 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 486410005069 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 486410005070 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 486410005071 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 486410005072 dimer interface [polypeptide binding]; other site 486410005073 ssDNA binding site [nucleotide binding]; other site 486410005074 tetramer (dimer of dimers) interface [polypeptide binding]; other site 486410005075 ERF superfamily; Region: ERF; pfam04404 486410005076 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 486410005077 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 486410005078 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 486410005079 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 486410005080 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 486410005081 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 486410005082 non-specific DNA binding site [nucleotide binding]; other site 486410005083 salt bridge; other site 486410005084 sequence-specific DNA binding site [nucleotide binding]; other site 486410005085 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 486410005086 non-specific DNA binding site [nucleotide binding]; other site 486410005087 salt bridge; other site 486410005088 sequence-specific DNA binding site [nucleotide binding]; other site 486410005089 Domain of unknown function (DUF955); Region: DUF955; pfam06114 486410005090 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 486410005091 active site 486410005092 catalytic residues [active] 486410005093 DNA binding site [nucleotide binding] 486410005094 Int/Topo IB signature motif; other site 486410005095 recombination regulator RecX; Provisional; Region: recX; PRK14135 486410005096 hypothetical protein; Provisional; Region: PRK13662 486410005097 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 486410005098 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410005099 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410005100 Integrase core domain; Region: rve; pfam00665 486410005101 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 486410005102 30S subunit binding site; other site 486410005103 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 486410005104 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 486410005105 active site 486410005106 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 486410005107 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 486410005108 ATP binding site [chemical binding]; other site 486410005109 putative Mg++ binding site [ion binding]; other site 486410005110 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 486410005111 nucleotide binding region [chemical binding]; other site 486410005112 ATP-binding site [chemical binding]; other site 486410005113 Uncharacterized conserved protein [Function unknown]; Region: COG1739 486410005114 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 486410005115 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 486410005116 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 486410005117 dimer interface [polypeptide binding]; other site 486410005118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 486410005119 catalytic residue [active] 486410005120 hypothetical protein; Provisional; Region: PRK07252 486410005121 general stress protein 13; Validated; Region: PRK08059 486410005122 RNA binding site [nucleotide binding]; other site 486410005123 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 486410005124 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 486410005125 active site 486410005126 motif I; other site 486410005127 motif II; other site 486410005128 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 486410005129 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 486410005130 active site 486410005131 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 486410005132 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 486410005133 active site 486410005134 phosphorylation site [posttranslational modification] 486410005135 intermolecular recognition site; other site 486410005136 dimerization interface [polypeptide binding]; other site 486410005137 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 486410005138 DNA binding residues [nucleotide binding] 486410005139 dimerization interface [polypeptide binding]; other site 486410005140 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 486410005141 Histidine kinase; Region: HisKA_3; pfam07730 486410005142 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 486410005143 ATP binding site [chemical binding]; other site 486410005144 Mg2+ binding site [ion binding]; other site 486410005145 G-X-G motif; other site 486410005146 Predicted membrane protein [Function unknown]; Region: COG4758 486410005147 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 486410005148 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 486410005149 Catalytic domain of Protein Kinases; Region: PKc; cd00180 486410005150 active site 486410005151 ATP binding site [chemical binding]; other site 486410005152 substrate binding site [chemical binding]; other site 486410005153 activation loop (A-loop); other site 486410005154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 486410005155 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 486410005156 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 486410005157 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 486410005158 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 486410005159 active site 486410005160 16S rRNA methyltransferase B; Provisional; Region: PRK14902 486410005161 NusB family; Region: NusB; pfam01029 486410005162 putative RNA binding site [nucleotide binding]; other site 486410005163 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 486410005164 S-adenosylmethionine binding site [chemical binding]; other site 486410005165 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 486410005166 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 486410005167 putative active site [active] 486410005168 substrate binding site [chemical binding]; other site 486410005169 putative cosubstrate binding site; other site 486410005170 catalytic site [active] 486410005171 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 486410005172 substrate binding site [chemical binding]; other site 486410005173 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 486410005174 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 486410005175 ATP binding site [chemical binding]; other site 486410005176 putative Mg++ binding site [ion binding]; other site 486410005177 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 486410005178 ATP-binding site [chemical binding]; other site 486410005179 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 486410005180 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 486410005181 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 486410005182 catalytic site [active] 486410005183 G-X2-G-X-G-K; other site 486410005184 hypothetical protein; Provisional; Region: PRK00106 486410005185 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 486410005186 Zn2+ binding site [ion binding]; other site 486410005187 Mg2+ binding site [ion binding]; other site 486410005188 Transcriptional regulator [Transcription]; Region: LysR; COG0583 486410005189 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 486410005190 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 486410005191 dimerization interface [polypeptide binding]; other site 486410005192 putative acyltransferase; Provisional; Region: PRK05790 486410005193 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 486410005194 dimer interface [polypeptide binding]; other site 486410005195 active site 486410005196 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 486410005197 Coenzyme A transferase; Region: CoA_trans; cl17247 486410005198 classical (c) SDRs; Region: SDR_c; cd05233 486410005199 NAD(P) binding site [chemical binding]; other site 486410005200 active site 486410005201 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 486410005202 S-ribosylhomocysteinase; Provisional; Region: PRK02260 486410005203 ribonuclease E; Reviewed; Region: rne; PRK10811 486410005204 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 486410005205 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 486410005206 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 486410005207 cell division protein GpsB; Provisional; Region: PRK14127 486410005208 DivIVA domain; Region: DivI1A_domain; TIGR03544 486410005209 hypothetical protein; Provisional; Region: PRK13660 486410005210 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 486410005211 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 486410005212 Transglycosylase; Region: Transgly; pfam00912 486410005213 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 486410005214 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 486410005215 trimer interface [polypeptide binding]; other site 486410005216 active site 486410005217 G bulge; other site 486410005218 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 486410005219 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 486410005220 homodimer interface [polypeptide binding]; other site 486410005221 NAD binding pocket [chemical binding]; other site 486410005222 ATP binding pocket [chemical binding]; other site 486410005223 Mg binding site [ion binding]; other site 486410005224 active-site loop [active] 486410005225 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 486410005226 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 486410005227 active site 486410005228 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 486410005229 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 486410005230 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 486410005231 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 486410005232 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 486410005233 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 486410005234 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 486410005235 Walker A/P-loop; other site 486410005236 ATP binding site [chemical binding]; other site 486410005237 Q-loop/lid; other site 486410005238 ABC transporter signature motif; other site 486410005239 Walker B; other site 486410005240 D-loop; other site 486410005241 H-loop/switch region; other site 486410005242 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 486410005243 dimer interface [polypeptide binding]; other site 486410005244 conserved gate region; other site 486410005245 putative PBP binding loops; other site 486410005246 ABC-ATPase subunit interface; other site 486410005247 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 486410005248 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 486410005249 substrate binding pocket [chemical binding]; other site 486410005250 membrane-bound complex binding site; other site 486410005251 hinge residues; other site 486410005252 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 486410005253 DEAD-like helicases superfamily; Region: DEXDc; smart00487 486410005254 ATP binding site [chemical binding]; other site 486410005255 Mg++ binding site [ion binding]; other site 486410005256 motif III; other site 486410005257 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 486410005258 nucleotide binding region [chemical binding]; other site 486410005259 ATP-binding site [chemical binding]; other site 486410005260 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 486410005261 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 486410005262 Mg++ binding site [ion binding]; other site 486410005263 putative catalytic motif [active] 486410005264 putative substrate binding site [chemical binding]; other site 486410005265 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 486410005266 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 486410005267 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 486410005268 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 486410005269 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 486410005270 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 486410005271 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 486410005272 MraW methylase family; Region: Methyltransf_5; pfam01795 486410005273 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 486410005274 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 486410005275 putative catalytic cysteine [active] 486410005276 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 486410005277 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 486410005278 nucleotide binding site [chemical binding]; other site 486410005279 homotetrameric interface [polypeptide binding]; other site 486410005280 putative phosphate binding site [ion binding]; other site 486410005281 putative allosteric binding site; other site 486410005282 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 486410005283 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 486410005284 Walker A/P-loop; other site 486410005285 ATP binding site [chemical binding]; other site 486410005286 Q-loop/lid; other site 486410005287 ABC transporter signature motif; other site 486410005288 Walker B; other site 486410005289 D-loop; other site 486410005290 H-loop/switch region; other site 486410005291 Enterocin A Immunity; Region: EntA_Immun; pfam08951 486410005292 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 486410005293 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 486410005294 TPP-binding site [chemical binding]; other site 486410005295 dimer interface [polypeptide binding]; other site 486410005296 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 486410005297 PYR/PP interface [polypeptide binding]; other site 486410005298 dimer interface [polypeptide binding]; other site 486410005299 TPP binding site [chemical binding]; other site 486410005300 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 486410005301 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 486410005302 active site 486410005303 intersubunit interactions; other site 486410005304 catalytic residue [active] 486410005305 Mga helix-turn-helix domain; Region: Mga; pfam05043 486410005306 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 486410005307 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 486410005308 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 486410005309 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 486410005310 amphipathic channel; other site 486410005311 Asn-Pro-Ala signature motifs; other site 486410005312 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 486410005313 glycerol kinase; Provisional; Region: glpK; PRK00047 486410005314 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 486410005315 N- and C-terminal domain interface [polypeptide binding]; other site 486410005316 active site 486410005317 MgATP binding site [chemical binding]; other site 486410005318 catalytic site [active] 486410005319 metal binding site [ion binding]; metal-binding site 486410005320 glycerol binding site [chemical binding]; other site 486410005321 homotetramer interface [polypeptide binding]; other site 486410005322 homodimer interface [polypeptide binding]; other site 486410005323 FBP binding site [chemical binding]; other site 486410005324 protein IIAGlc interface [polypeptide binding]; other site 486410005325 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 486410005326 hypothetical protein; Provisional; Region: PRK02539 486410005327 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 486410005328 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 486410005329 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 486410005330 dimer interface [polypeptide binding]; other site 486410005331 motif 1; other site 486410005332 active site 486410005333 motif 2; other site 486410005334 motif 3; other site 486410005335 potential protein location (hypothetical protein) that overlaps protein ( hypothetical protein) 486410005336 potential protein location ( hypothetical protein) that overlaps protein (hypothetical protein) 486410005337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 486410005338 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 486410005339 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 486410005340 active site 486410005341 catalytic tetrad [active] 486410005342 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 486410005343 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 486410005344 active site 486410005345 dimer interface [polypeptide binding]; other site 486410005346 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 486410005347 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 486410005348 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 486410005349 PhoU domain; Region: PhoU; pfam01895 486410005350 PhoU domain; Region: PhoU; pfam01895 486410005351 valyl-tRNA synthetase; Provisional; Region: valS; PRK14900 486410005352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 486410005353 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 486410005354 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 486410005355 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 486410005356 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 486410005357 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 486410005358 active site 486410005359 motif I; other site 486410005360 motif II; other site 486410005361 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 486410005362 Predicted membrane protein [Function unknown]; Region: COG2860 486410005363 UPF0126 domain; Region: UPF0126; pfam03458 486410005364 UPF0126 domain; Region: UPF0126; pfam03458 486410005365 potential frameshift: common BLAST hit: gi|19746610|ref|NP_607746.1| tagatose 1,6-diphosphate aldolase 486410005366 Class I aldolases; Region: Aldolase_Class_I; cl17187 486410005367 Class I aldolases; Region: Aldolase_Class_I; cl17187 486410005368 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 486410005369 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 486410005370 putative substrate binding site [chemical binding]; other site 486410005371 putative ATP binding site [chemical binding]; other site 486410005372 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 486410005373 galactose-6-phosphate isomerase subunit LacA; Provisional; Region: PRK12613 486410005374 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 486410005375 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 486410005376 Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]; Region: SgaB; COG3414 486410005377 active site 486410005378 P-loop; other site 486410005379 phosphorylation site [posttranslational modification] 486410005380 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 486410005381 active site 486410005382 phosphorylation site [posttranslational modification] 486410005383 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 486410005384 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 486410005385 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 486410005386 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 486410005387 metal-binding site [ion binding] 486410005388 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 486410005389 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 486410005390 metal-binding site [ion binding] 486410005391 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 486410005392 Soluble P-type ATPase [General function prediction only]; Region: COG4087 486410005393 Predicted transcriptional regulator [Transcription]; Region: COG3682 486410005394 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 486410005395 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410005396 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 486410005397 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; cl09098 486410005398 catalytic site [active] 486410005399 potential frameshift: common BLAST hit: gi|22536628|ref|NP_687479.1| IS256 family transposase 486410005400 Transposase, Mutator family; Region: Transposase_mut; pfam00872 486410005401 MULE transposase domain; Region: MULE; pfam10551 486410005402 Transposase, Mutator family; Region: Transposase_mut; pfam00872 486410005403 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 486410005404 Sortase B (SrtB) or subfamily-2 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_B_2; cd05826 486410005405 active site 486410005406 catalytic site [active] 486410005407 T surface-antigen of pili; Region: FctA; pfam12892 486410005408 sortase B signal domain, QVPTGV class; Region: srtB_sig_QVPTGV; TIGR03065 486410005409 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 486410005410 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 486410005411 Catalytic site [active] 486410005412 Cna protein B-type domain; Region: Cna_B; pfam05738 486410005413 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 486410005414 TQXA domain; Region: TQXA_dom; TIGR03934 486410005415 YSIRK-targeted surface antigen transcriptional regulator; Region: adjacent_YSIRK; TIGR04094 486410005416 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 486410005417 potential frameshift: common BLAST hit: gi|22537385|ref|NP_688236.1| ISSdy1, transposase OrfB 486410005418 Integrase core domain; Region: rve_3; pfam13683 486410005419 HTH-like domain; Region: HTH_21; pfam13276 486410005420 Integrase core domain; Region: rve; pfam00665 486410005421 Transposase; Region: HTH_Tnp_1; pfam01527 486410005422 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 486410005423 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 486410005424 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 486410005425 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 486410005426 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 486410005427 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 486410005428 translation initiation factor IF-2; Region: IF-2; TIGR00487 486410005429 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 486410005430 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 486410005431 G1 box; other site 486410005432 putative GEF interaction site [polypeptide binding]; other site 486410005433 GTP/Mg2+ binding site [chemical binding]; other site 486410005434 Switch I region; other site 486410005435 G2 box; other site 486410005436 G3 box; other site 486410005437 Switch II region; other site 486410005438 G4 box; other site 486410005439 G5 box; other site 486410005440 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 486410005441 Translation-initiation factor 2; Region: IF-2; pfam11987 486410005442 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 486410005443 hypothetical protein; Provisional; Region: PRK07283 486410005444 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 486410005445 putative RNA binding cleft [nucleotide binding]; other site 486410005446 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 486410005447 NusA N-terminal domain; Region: NusA_N; pfam08529 486410005448 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 486410005449 RNA binding site [nucleotide binding]; other site 486410005450 homodimer interface [polypeptide binding]; other site 486410005451 NusA-like KH domain; Region: KH_5; pfam13184 486410005452 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 486410005453 G-X-X-G motif; other site 486410005454 ribosome maturation protein RimP; Reviewed; Region: PRK00092 486410005455 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 486410005456 putative oligomer interface [polypeptide binding]; other site 486410005457 putative RNA binding site [nucleotide binding]; other site 486410005458 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 486410005459 S-adenosylmethionine binding site [chemical binding]; other site 486410005460 Thiamine kinase and related kinases [Coenzyme transport and metabolism]; Region: ycfN; COG0510 486410005461 Phosphotransferase enzyme family; Region: APH; pfam01636 486410005462 substrate binding site [chemical binding]; other site 486410005463 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 486410005464 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 486410005465 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 486410005466 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 486410005467 Walker A/P-loop; other site 486410005468 ATP binding site [chemical binding]; other site 486410005469 Q-loop/lid; other site 486410005470 ABC transporter signature motif; other site 486410005471 Walker B; other site 486410005472 D-loop; other site 486410005473 H-loop/switch region; other site 486410005474 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 486410005475 HIT family signature motif; other site 486410005476 catalytic residue [active] 486410005477 Transcriptional regulator [Transcription]; Region: LytR; COG1316 486410005478 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 486410005479 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 486410005480 Coenzyme A binding pocket [chemical binding]; other site 486410005481 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 486410005482 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 486410005483 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 486410005484 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 486410005485 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 486410005486 active site 486410005487 motif I; other site 486410005488 motif II; other site 486410005489 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 486410005490 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 486410005491 active pocket/dimerization site; other site 486410005492 active site 486410005493 phosphorylation site [posttranslational modification] 486410005494 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 486410005495 active site 486410005496 phosphorylation site [posttranslational modification] 486410005497 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 486410005498 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 486410005499 Domain of unknown function (DUF956); Region: DUF956; pfam06115 486410005500 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 486410005501 Acyltransferase family; Region: Acyl_transf_3; pfam01757 486410005502 seryl-tRNA synthetase; Provisional; Region: PRK05431 486410005503 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 486410005504 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 486410005505 dimer interface [polypeptide binding]; other site 486410005506 active site 486410005507 motif 1; other site 486410005508 motif 2; other site 486410005509 motif 3; other site 486410005510 acetyl-CoA carboxylase subunit alpha; Provisional; Region: PRK12319 486410005511 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 486410005512 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 486410005513 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 486410005514 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 486410005515 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 486410005516 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 486410005517 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 486410005518 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 486410005519 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 486410005520 carboxyltransferase (CT) interaction site; other site 486410005521 biotinylation site [posttranslational modification]; other site 486410005522 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 486410005523 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 486410005524 dimer interface [polypeptide binding]; other site 486410005525 active site 486410005526 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 486410005527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 486410005528 NAD(P) binding site [chemical binding]; other site 486410005529 active site 486410005530 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 486410005531 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 486410005532 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 486410005533 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 486410005534 FMN binding site [chemical binding]; other site 486410005535 substrate binding site [chemical binding]; other site 486410005536 putative catalytic residue [active] 486410005537 acyl carrier protein; Provisional; Region: acpP; PRK00982 486410005538 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 486410005539 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 486410005540 dimer interface [polypeptide binding]; other site 486410005541 active site 486410005542 CoA binding pocket [chemical binding]; other site 486410005543 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 486410005544 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 486410005545 putative Zn2+ binding site [ion binding]; other site 486410005546 putative DNA binding site [nucleotide binding]; other site 486410005547 enoyl-CoA hydratase; Provisional; Region: PRK07260 486410005548 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 486410005549 substrate binding site [chemical binding]; other site 486410005550 oxyanion hole (OAH) forming residues; other site 486410005551 trimer interface [polypeptide binding]; other site 486410005552 chaperone protein DnaJ; Provisional; Region: PRK14276 486410005553 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 486410005554 HSP70 interaction site [polypeptide binding]; other site 486410005555 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 486410005556 substrate binding site [polypeptide binding]; other site 486410005557 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 486410005558 Zn binding sites [ion binding]; other site 486410005559 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 486410005560 dimer interface [polypeptide binding]; other site 486410005561 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 486410005562 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 486410005563 conserved cys residue [active] 486410005564 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 486410005565 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 486410005566 nucleotide binding site [chemical binding]; other site 486410005567 NEF interaction site [polypeptide binding]; other site 486410005568 SBD interface [polypeptide binding]; other site 486410005569 GrpE; Region: GrpE; pfam01025 486410005570 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 486410005571 dimer interface [polypeptide binding]; other site 486410005572 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 486410005573 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 486410005574 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 486410005575 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 486410005576 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 486410005577 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 486410005578 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 486410005579 catalytic core [active] 486410005580 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 486410005581 Predicted membrane protein [Function unknown]; Region: COG2261 486410005582 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 486410005583 EamA-like transporter family; Region: EamA; pfam00892 486410005584 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 486410005585 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410005586 Transposase [DNA replication, recombination, and repair]; Region: COG5433 486410005587 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 486410005588 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 486410005589 GatB domain; Region: GatB_Yqey; pfam02637 486410005590 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 486410005591 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 486410005592 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 486410005593 pyruvate phosphate dikinase; Provisional; Region: PRK09279 486410005594 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 486410005595 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 486410005596 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 486410005597 PEP synthetase regulatory protein; Provisional; Region: PRK05339 486410005598 FOG: CBS domain [General function prediction only]; Region: COG0517 486410005599 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 486410005600 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 486410005601 active site residue [active] 486410005602 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 486410005603 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 486410005604 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 486410005605 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 486410005606 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 486410005607 active site residue [active] 486410005608 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 486410005609 active site residue [active] 486410005610 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 486410005611 putative homodimer interface [polypeptide binding]; other site 486410005612 putative homotetramer interface [polypeptide binding]; other site 486410005613 putative metal binding site [ion binding]; other site 486410005614 putative homodimer-homodimer interface [polypeptide binding]; other site 486410005615 putative allosteric switch controlling residues; other site 486410005616 Isochorismatase family; Region: Isochorismatase; pfam00857 486410005617 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 486410005618 catalytic triad [active] 486410005619 conserved cis-peptide bond; other site 486410005620 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 486410005621 CodY GAF-like domain; Region: CodY; pfam06018 486410005622 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 486410005623 dimerization interface [polypeptide binding]; other site 486410005624 putative Zn2+ binding site [ion binding]; other site 486410005625 putative DNA binding site [nucleotide binding]; other site 486410005626 aminotransferase AlaT; Validated; Region: PRK09265 486410005627 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 486410005628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 486410005629 homodimer interface [polypeptide binding]; other site 486410005630 catalytic residue [active] 486410005631 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 486410005632 Ligand Binding Site [chemical binding]; other site 486410005633 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 486410005634 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 486410005635 active site 486410005636 motif I; other site 486410005637 motif II; other site 486410005638 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 486410005639 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4696 486410005640 metal binding site [ion binding]; metal-binding site 486410005641 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 486410005642 active site 486410005643 homotetramer interface [polypeptide binding]; other site 486410005644 homodimer interface [polypeptide binding]; other site 486410005645 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 486410005646 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 486410005647 active site 486410005648 catalytic tetrad [active] 486410005649 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 486410005650 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 486410005651 generic binding surface II; other site 486410005652 ssDNA binding site; other site 486410005653 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 486410005654 ATP binding site [chemical binding]; other site 486410005655 putative Mg++ binding site [ion binding]; other site 486410005656 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 486410005657 nucleotide binding region [chemical binding]; other site 486410005658 ATP-binding site [chemical binding]; other site 486410005659 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 486410005660 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 486410005661 Walker A/P-loop; other site 486410005662 ATP binding site [chemical binding]; other site 486410005663 Q-loop/lid; other site 486410005664 ABC transporter signature motif; other site 486410005665 Walker B; other site 486410005666 D-loop; other site 486410005667 H-loop/switch region; other site 486410005668 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410005669 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 486410005670 Walker A/P-loop; other site 486410005671 ATP binding site [chemical binding]; other site 486410005672 Q-loop/lid; other site 486410005673 ABC transporter signature motif; other site 486410005674 Walker B; other site 486410005675 D-loop; other site 486410005676 H-loop/switch region; other site 486410005677 Cobalt transport protein; Region: CbiQ; cl00463 486410005678 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 486410005679 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 486410005680 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410005681 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 486410005682 Walker A/P-loop; other site 486410005683 ATP binding site [chemical binding]; other site 486410005684 Q-loop/lid; other site 486410005685 ABC transporter signature motif; other site 486410005686 Walker B; other site 486410005687 D-loop; other site 486410005688 H-loop/switch region; other site 486410005689 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 486410005690 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410005691 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410005692 Walker A/P-loop; other site 486410005693 ATP binding site [chemical binding]; other site 486410005694 Q-loop/lid; other site 486410005695 ABC transporter signature motif; other site 486410005696 Walker B; other site 486410005697 D-loop; other site 486410005698 H-loop/switch region; other site 486410005699 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 486410005700 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 486410005701 Walker A/P-loop; other site 486410005702 ATP binding site [chemical binding]; other site 486410005703 Q-loop/lid; other site 486410005704 ABC transporter signature motif; other site 486410005705 Walker B; other site 486410005706 D-loop; other site 486410005707 H-loop/switch region; other site 486410005708 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 486410005709 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 486410005710 ABC-ATPase subunit interface; other site 486410005711 dimer interface [polypeptide binding]; other site 486410005712 putative PBP binding regions; other site 486410005713 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 486410005714 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 486410005715 intersubunit interface [polypeptide binding]; other site 486410005716 Cell surface heme-binding protein Shp; Region: HemeBinding_Shp; pfam11545 486410005717 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 486410005718 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 486410005719 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 486410005720 heme-binding site [chemical binding]; other site 486410005721 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 486410005722 Leucine-rich repeats; other site 486410005723 Leucine rich repeat; Region: LRR_8; pfam13855 486410005724 Substrate binding site [chemical binding]; other site 486410005725 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 486410005726 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 486410005727 heme-binding site [chemical binding]; other site 486410005728 Surface antigen [General function prediction only]; Region: COG3942 486410005729 CHAP domain; Region: CHAP; pfam05257 486410005730 alanine racemase; Reviewed; Region: alr; PRK00053 486410005731 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 486410005732 active site 486410005733 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 486410005734 dimer interface [polypeptide binding]; other site 486410005735 substrate binding site [chemical binding]; other site 486410005736 catalytic residues [active] 486410005737 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 486410005738 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 486410005739 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 486410005740 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 486410005741 nucleotide binding region [chemical binding]; other site 486410005742 ATP-binding site [chemical binding]; other site 486410005743 SEC-C motif; Region: SEC-C; pfam02810 486410005744 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 486410005745 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 486410005746 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 486410005747 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 486410005748 nucleotide binding site [chemical binding]; other site 486410005749 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 486410005750 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 486410005751 active site turn [active] 486410005752 phosphorylation site [posttranslational modification] 486410005753 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 486410005754 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 486410005755 HPr interaction site; other site 486410005756 glycerol kinase (GK) interaction site [polypeptide binding]; other site 486410005757 active site 486410005758 phosphorylation site [posttranslational modification] 486410005759 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 486410005760 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 486410005761 substrate binding [chemical binding]; other site 486410005762 active site 486410005763 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 486410005764 Transcriptional regulators [Transcription]; Region: PurR; COG1609 486410005765 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 486410005766 DNA binding site [nucleotide binding] 486410005767 domain linker motif; other site 486410005768 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 486410005769 dimerization interface [polypeptide binding]; other site 486410005770 ligand binding site [chemical binding]; other site 486410005771 sodium binding site [ion binding]; other site 486410005772 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 486410005773 putative RNA binding site [nucleotide binding]; other site 486410005774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 486410005775 elongation factor P; Validated; Region: PRK00529 486410005776 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 486410005777 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 486410005778 RNA binding site [nucleotide binding]; other site 486410005779 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 486410005780 RNA binding site [nucleotide binding]; other site 486410005781 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 486410005782 catalytic motif [active] 486410005783 Zn binding site [ion binding]; other site 486410005784 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 486410005785 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 486410005786 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 486410005787 active site 486410005788 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 486410005789 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 486410005790 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 486410005791 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 486410005792 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 486410005793 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 486410005794 Cl binding site [ion binding]; other site 486410005795 oligomer interface [polypeptide binding]; other site 486410005796 Uncharacterized membrane-bound protein conserved in bacteria [Function unknown]; Region: COG4858 486410005797 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 486410005798 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 486410005799 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 486410005800 dimer interface [polypeptide binding]; other site 486410005801 ssDNA binding site [nucleotide binding]; other site 486410005802 tetramer (dimer of dimers) interface [polypeptide binding]; other site 486410005803 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 486410005804 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 486410005805 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 486410005806 minor groove reading motif; other site 486410005807 helix-hairpin-helix signature motif; other site 486410005808 substrate binding pocket [chemical binding]; other site 486410005809 active site 486410005810 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 486410005811 DNA binding and oxoG recognition site [nucleotide binding] 486410005812 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 486410005813 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 486410005814 catalytic residues [active] 486410005815 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 486410005816 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 486410005817 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 486410005818 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 486410005819 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 486410005820 MutS domain III; Region: MutS_III; pfam05192 486410005821 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 486410005822 Walker A/P-loop; other site 486410005823 ATP binding site [chemical binding]; other site 486410005824 Q-loop/lid; other site 486410005825 ABC transporter signature motif; other site 486410005826 Walker B; other site 486410005827 D-loop; other site 486410005828 H-loop/switch region; other site 486410005829 Smr domain; Region: Smr; pfam01713 486410005830 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 486410005831 Colicin V production protein; Region: Colicin_V; pfam02674 486410005832 ribonuclease HIII; Provisional; Region: PRK00996 486410005833 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 486410005834 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 486410005835 RNA/DNA hybrid binding site [nucleotide binding]; other site 486410005836 active site 486410005837 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 486410005838 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 486410005839 Catalytic site [active] 486410005840 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; cl10465 486410005841 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 486410005842 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 486410005843 DNA binding site [nucleotide binding] 486410005844 AAA domain; Region: AAA_30; pfam13604 486410005845 Family description; Region: UvrD_C_2; pfam13538 486410005846 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 486410005847 active site 486410005848 DNA polymerase IV; Validated; Region: PRK02406 486410005849 DNA binding site [nucleotide binding] 486410005850 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 486410005851 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 486410005852 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 486410005853 Coenzyme A binding pocket [chemical binding]; other site 486410005854 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 486410005855 homodimer interface [polypeptide binding]; other site 486410005856 maltodextrin glucosidase; Provisional; Region: PRK10785 486410005857 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 486410005858 active site 486410005859 homodimer interface [polypeptide binding]; other site 486410005860 catalytic site [active] 486410005861 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 486410005862 Protein of unknown function, DUF624; Region: DUF624; pfam04854 486410005863 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 486410005864 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 486410005865 dimer interface [polypeptide binding]; other site 486410005866 ABC-ATPase subunit interface; other site 486410005867 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 486410005868 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 486410005869 dimer interface [polypeptide binding]; other site 486410005870 conserved gate region; other site 486410005871 ABC-ATPase subunit interface; other site 486410005872 Transcriptional regulators [Transcription]; Region: PurR; COG1609 486410005873 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 486410005874 DNA binding site [nucleotide binding] 486410005875 domain linker motif; other site 486410005876 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 486410005877 dimerization interface [polypeptide binding]; other site 486410005878 ligand binding site [chemical binding]; other site 486410005879 Beta-lactamase; Region: Beta-lactamase; pfam00144 486410005880 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 486410005881 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 486410005882 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 486410005883 active site 486410005884 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 486410005885 amphipathic channel; other site 486410005886 Asn-Pro-Ala signature motifs; other site 486410005887 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 486410005888 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; pfam09168 486410005889 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 486410005890 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 486410005891 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 486410005892 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 486410005893 non-specific DNA binding site [nucleotide binding]; other site 486410005894 salt bridge; other site 486410005895 sequence-specific DNA binding site [nucleotide binding]; other site 486410005896 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 486410005897 non-specific DNA binding site [nucleotide binding]; other site 486410005898 salt bridge; other site 486410005899 sequence-specific DNA binding site [nucleotide binding]; other site 486410005900 hypothetical protein; Validated; Region: PRK00153 486410005901 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 486410005902 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 486410005903 DNA binding residues [nucleotide binding] 486410005904 dimer interface [polypeptide binding]; other site 486410005905 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 486410005906 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 486410005907 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 486410005908 active site 486410005909 catalytic site [active] 486410005910 substrate binding site [chemical binding]; other site 486410005911 HTH domain; Region: HTH_11; cl17392 486410005912 HI0933-like protein; Region: HI0933_like; pfam03486 486410005913 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 486410005914 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 486410005915 UGMP family protein; Validated; Region: PRK09604 486410005916 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 486410005917 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 486410005918 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 486410005919 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 486410005920 Coenzyme A binding pocket [chemical binding]; other site 486410005921 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 486410005922 Glycoprotease family; Region: Peptidase_M22; pfam00814 486410005923 hypothetical protein; Provisional; Region: PRK13667 486410005924 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 486410005925 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 486410005926 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 486410005927 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 486410005928 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 486410005929 Walker A/P-loop; other site 486410005930 ATP binding site [chemical binding]; other site 486410005931 Q-loop/lid; other site 486410005932 ABC transporter signature motif; other site 486410005933 Walker B; other site 486410005934 D-loop; other site 486410005935 H-loop/switch region; other site 486410005936 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 486410005937 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 486410005938 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 486410005939 Walker A/P-loop; other site 486410005940 ATP binding site [chemical binding]; other site 486410005941 Q-loop/lid; other site 486410005942 ABC transporter signature motif; other site 486410005943 Walker B; other site 486410005944 D-loop; other site 486410005945 H-loop/switch region; other site 486410005946 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 486410005947 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 486410005948 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 486410005949 dimer interface [polypeptide binding]; other site 486410005950 conserved gate region; other site 486410005951 putative PBP binding loops; other site 486410005952 ABC-ATPase subunit interface; other site 486410005953 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 486410005954 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 486410005955 dimer interface [polypeptide binding]; other site 486410005956 conserved gate region; other site 486410005957 putative PBP binding loops; other site 486410005958 ABC-ATPase subunit interface; other site 486410005959 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 486410005960 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 486410005961 peptide binding site [polypeptide binding]; other site 486410005962 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 486410005963 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 486410005964 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 486410005965 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 486410005966 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 486410005967 DNA binding residues [nucleotide binding] 486410005968 putative dimer interface [polypeptide binding]; other site 486410005969 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 486410005970 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 486410005971 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 486410005972 Phosphoglycerate kinase; Region: PGK; pfam00162 486410005973 substrate binding site [chemical binding]; other site 486410005974 hinge regions; other site 486410005975 ADP binding site [chemical binding]; other site 486410005976 catalytic site [active] 486410005977 5'-nucleotidase, lipoprotein e(P4) family; Region: lipo_e_P4; TIGR01533 486410005978 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 486410005979 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 486410005980 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 486410005981 elongation factor G; Reviewed; Region: PRK00007 486410005982 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 486410005983 G1 box; other site 486410005984 putative GEF interaction site [polypeptide binding]; other site 486410005985 GTP/Mg2+ binding site [chemical binding]; other site 486410005986 Switch I region; other site 486410005987 G2 box; other site 486410005988 G3 box; other site 486410005989 Switch II region; other site 486410005990 G4 box; other site 486410005991 G5 box; other site 486410005992 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 486410005993 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 486410005994 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 486410005995 30S ribosomal protein S7; Validated; Region: PRK05302 486410005996 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 486410005997 S17 interaction site [polypeptide binding]; other site 486410005998 S8 interaction site; other site 486410005999 16S rRNA interaction site [nucleotide binding]; other site 486410006000 streptomycin interaction site [chemical binding]; other site 486410006001 23S rRNA interaction site [nucleotide binding]; other site 486410006002 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 486410006003 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 486410006004 pur operon repressor; Provisional; Region: PRK09213 486410006005 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 486410006006 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 486410006007 active site 486410006008 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 486410006009 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 486410006010 generic binding surface II; other site 486410006011 generic binding surface I; other site 486410006012 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 486410006013 Zn2+ binding site [ion binding]; other site 486410006014 Mg2+ binding site [ion binding]; other site 486410006015 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 486410006016 RmuC family; Region: RmuC; pfam02646 486410006017 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 486410006018 Thiamine pyrophosphokinase; Region: TPK; cd07995 486410006019 active site 486410006020 dimerization interface [polypeptide binding]; other site 486410006021 thiamine binding site [chemical binding]; other site 486410006022 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 486410006023 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 486410006024 substrate binding site [chemical binding]; other site 486410006025 hexamer interface [polypeptide binding]; other site 486410006026 metal binding site [ion binding]; metal-binding site 486410006027 GTPase RsgA; Reviewed; Region: PRK00098 486410006028 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 486410006029 RNA binding site [nucleotide binding]; other site 486410006030 homodimer interface [polypeptide binding]; other site 486410006031 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 486410006032 GTPase/Zn-binding domain interface [polypeptide binding]; other site 486410006033 GTP/Mg2+ binding site [chemical binding]; other site 486410006034 G4 box; other site 486410006035 G1 box; other site 486410006036 Switch I region; other site 486410006037 G2 box; other site 486410006038 G3 box; other site 486410006039 Switch II region; other site 486410006040 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 486410006041 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 486410006042 S-adenosylmethionine binding site [chemical binding]; other site 486410006043 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 486410006044 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 486410006045 putative active site [active] 486410006046 putative metal binding site [ion binding]; other site 486410006047 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 486410006048 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 486410006049 active site 486410006050 Isochorismatase family; Region: Isochorismatase; pfam00857 486410006051 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 486410006052 catalytic triad [active] 486410006053 conserved cis-peptide bond; other site 486410006054 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 486410006055 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 486410006056 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 486410006057 putative active site [active] 486410006058 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 486410006059 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 486410006060 nucleotide binding site [chemical binding]; other site 486410006061 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 486410006062 Class I aldolases; Region: Aldolase_Class_I; cl17187 486410006063 catalytic residue [active] 486410006064 Protein of unknown function, DUF624; Region: DUF624; pfam04854 486410006065 Domain of unknown function (DUF386); Region: DUF386; cl01047 486410006066 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 486410006067 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 486410006068 dimer interface [polypeptide binding]; other site 486410006069 conserved gate region; other site 486410006070 putative PBP binding loops; other site 486410006071 ABC-ATPase subunit interface; other site 486410006072 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 486410006073 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 486410006074 dimer interface [polypeptide binding]; other site 486410006075 ABC-ATPase subunit interface; other site 486410006076 putative PBP binding loops; other site 486410006077 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 486410006078 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 486410006079 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 486410006080 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 486410006081 putative active site cavity [active] 486410006082 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 486410006083 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 486410006084 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 486410006085 G-X-X-G motif; other site 486410006086 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 486410006087 RxxxH motif; other site 486410006088 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 486410006089 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 486410006090 ribonuclease P; Reviewed; Region: rnpA; PRK00499 486410006091 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 486410006092 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 486410006093 active site 486410006094 phosphorylation site [posttranslational modification] 486410006095 intermolecular recognition site; other site 486410006096 dimerization interface [polypeptide binding]; other site 486410006097 LytTr DNA-binding domain; Region: LytTR; pfam04397 486410006098 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 486410006099 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 486410006100 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 486410006101 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 486410006102 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 486410006103 active site 486410006104 HIGH motif; other site 486410006105 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 486410006106 active site 486410006107 KMSKS motif; other site 486410006108 H+ Antiporter protein; Region: 2A0121; TIGR00900 486410006109 LytTr DNA-binding domain; Region: LytTR; smart00850 486410006110 Uncharacterized conserved protein [Function unknown]; Region: COG2013 486410006111 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 486410006112 active site clefts [active] 486410006113 zinc binding site [ion binding]; other site 486410006114 dimer interface [polypeptide binding]; other site 486410006115 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 486410006116 DNA repair protein RadA; Provisional; Region: PRK11823 486410006117 Walker A motif/ATP binding site; other site 486410006118 ATP binding site [chemical binding]; other site 486410006119 Walker B motif; other site 486410006120 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 486410006121 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 486410006122 trimer interface [polypeptide binding]; other site 486410006123 active site 486410006124 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 486410006125 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 486410006126 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410006127 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 486410006128 Walker A/P-loop; other site 486410006129 ATP binding site [chemical binding]; other site 486410006130 Q-loop/lid; other site 486410006131 ABC transporter signature motif; other site 486410006132 Walker B; other site 486410006133 D-loop; other site 486410006134 H-loop/switch region; other site 486410006135 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 486410006136 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410006137 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410006138 Walker A/P-loop; other site 486410006139 ATP binding site [chemical binding]; other site 486410006140 Q-loop/lid; other site 486410006141 ABC transporter signature motif; other site 486410006142 Walker B; other site 486410006143 D-loop; other site 486410006144 H-loop/switch region; other site 486410006145 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 486410006146 MarR family; Region: MarR_2; pfam12802 486410006147 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 486410006148 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 486410006149 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 486410006150 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 486410006151 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 486410006152 active site 486410006153 tetramer interface; other site 486410006154 Predicted membrane protein [Function unknown]; Region: COG2364 486410006155 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 486410006156 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 486410006157 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 486410006158 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 486410006159 TQXA domain; Region: TQXA_dom; TIGR03934 486410006160 Fibronectin binding repeat; Region: Fn_bind; pfam02986 486410006161 Fibronectin binding repeat; Region: Fn_bind; pfam02986 486410006162 Fibronectin binding repeat; Region: Fn_bind; pfam02986 486410006163 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 486410006164 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 486410006165 Mga helix-turn-helix domain; Region: Mga; pfam05043 486410006166 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 486410006167 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 486410006168 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 486410006169 active site 486410006170 dimer interface [polypeptide binding]; other site 486410006171 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 486410006172 dimer interface [polypeptide binding]; other site 486410006173 active site 486410006174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 486410006175 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 486410006176 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 486410006177 catalytic residues [active] 486410006178 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 486410006179 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 486410006180 potential frameshift: common BLAST hit: gi|139473044|ref|YP_001127759.1| lipoprotein 486410006181 Uncharacterized protein involved in cytokinesis, contains TGc (transglutaminase/protease-like) domain [Cell division and chromosome partitioning]; Region: CYK3; COG5279 486410006182 Uncharacterized protein involved in cytokinesis, contains TGc (transglutaminase/protease-like) domain [Cell division and chromosome partitioning]; Region: CYK3; COG5279 486410006183 Transglutaminase/protease-like homologues; Region: TGc; smart00460 486410006184 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 486410006185 nucleoside/Zn binding site; other site 486410006186 dimer interface [polypeptide binding]; other site 486410006187 catalytic motif [active] 486410006188 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 486410006189 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 486410006190 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 486410006191 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 486410006192 CHY zinc finger; Region: zf-CHY; pfam05495 486410006193 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 486410006194 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 486410006195 Protein of unknown function (DUF975); Region: DUF975; pfam06161 486410006196 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 486410006197 metal binding site 2 [ion binding]; metal-binding site 486410006198 putative DNA binding helix; other site 486410006199 metal binding site 1 [ion binding]; metal-binding site 486410006200 dimer interface [polypeptide binding]; other site 486410006201 structural Zn2+ binding site [ion binding]; other site 486410006202 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 486410006203 DNA polymerase I; Provisional; Region: PRK05755 486410006204 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 486410006205 active site 486410006206 metal binding site 1 [ion binding]; metal-binding site 486410006207 putative 5' ssDNA interaction site; other site 486410006208 metal binding site 3; metal-binding site 486410006209 metal binding site 2 [ion binding]; metal-binding site 486410006210 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 486410006211 putative DNA binding site [nucleotide binding]; other site 486410006212 putative metal binding site [ion binding]; other site 486410006213 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 486410006214 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 486410006215 active site 486410006216 DNA binding site [nucleotide binding] 486410006217 catalytic site [active] 486410006218 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 486410006219 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 486410006220 dimer interface [polypeptide binding]; other site 486410006221 conserved gate region; other site 486410006222 putative PBP binding loops; other site 486410006223 ABC-ATPase subunit interface; other site 486410006224 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 486410006225 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 486410006226 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 486410006227 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 486410006228 Walker A/P-loop; other site 486410006229 ATP binding site [chemical binding]; other site 486410006230 Q-loop/lid; other site 486410006231 ABC transporter signature motif; other site 486410006232 Walker B; other site 486410006233 D-loop; other site 486410006234 H-loop/switch region; other site 486410006235 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 486410006236 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 486410006237 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 486410006238 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 486410006239 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 486410006240 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 486410006241 PRD domain; Region: PRD; pfam00874 486410006242 PRD domain; Region: PRD; pfam00874 486410006243 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 486410006244 active site 486410006245 P-loop; other site 486410006246 phosphorylation site [posttranslational modification] 486410006247 L-ribulose-5-phosphate 4-epimerase; Provisional; Region: araD; PRK13145 486410006248 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 486410006249 intersubunit interface [polypeptide binding]; other site 486410006250 active site 486410006251 Zn2+ binding site [ion binding]; other site 486410006252 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 486410006253 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 486410006254 AP (apurinic/apyrimidinic) site pocket; other site 486410006255 DNA interaction; other site 486410006256 Metal-binding active site; metal-binding site 486410006257 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 486410006258 active site 486410006259 dimer interface [polypeptide binding]; other site 486410006260 magnesium binding site [ion binding]; other site 486410006261 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 486410006262 active site 486410006263 phosphorylation site [posttranslational modification] 486410006264 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 486410006265 active site 486410006266 P-loop; other site 486410006267 phosphorylation site [posttranslational modification] 486410006268 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 486410006269 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 486410006270 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 486410006271 HIGH motif; other site 486410006272 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 486410006273 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 486410006274 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 486410006275 active site 486410006276 KMSKS motif; other site 486410006277 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 486410006278 tRNA binding surface [nucleotide binding]; other site 486410006279 frame shift mutation; similar to metB; similar to cystathionine beta-lyase [Streptococcus pyogenes MGAS8232] 486410006280 potential frameshift: common BLAST hit: gi|94995372|ref|YP_603470.1| Transposase 486410006281 Helix-turn-helix domain; Region: HTH_38; pfam13936 486410006282 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410006283 Integrase core domain; Region: rve; pfam00665 486410006284 Transposase; Region: HTH_Tnp_1; pfam01527 486410006285 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 486410006286 potential frameshift: common BLAST hit: gi|22537395|ref|NP_688246.1| ISSdy1, transposase OrfB 486410006287 HTH-like domain; Region: HTH_21; pfam13276 486410006288 Integrase core domain; Region: rve; pfam00665 486410006289 Integrase core domain; Region: rve; pfam00665 486410006290 Integrase core domain; Region: rve_3; cl15866 486410006291 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 486410006292 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 486410006293 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 486410006294 Walker A/P-loop; other site 486410006295 ATP binding site [chemical binding]; other site 486410006296 Q-loop/lid; other site 486410006297 ABC transporter signature motif; other site 486410006298 Walker B; other site 486410006299 D-loop; other site 486410006300 H-loop/switch region; other site 486410006301 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 486410006302 ATP binding site [chemical binding]; other site 486410006303 substrate interface [chemical binding]; other site 486410006304 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410006305 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 486410006306 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 486410006307 Nicotine adenine dinucleotide glycohydrolase (NADase); Region: NADase_NGA; pfam07461 486410006308 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 486410006309 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 486410006310 putative homodimer interface [polypeptide binding]; other site 486410006311 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 486410006312 heterodimer interface [polypeptide binding]; other site 486410006313 homodimer interface [polypeptide binding]; other site 486410006314 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 486410006315 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 486410006316 Transglycosylase; Region: Transgly; pfam00912 486410006317 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 486410006318 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 486410006319 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 486410006320 homotrimer interaction site [polypeptide binding]; other site 486410006321 putative active site [active] 486410006322 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 486410006323 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 486410006324 active site 486410006325 Predicted membrane protein [Function unknown]; Region: COG4640 486410006326 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 486410006327 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 486410006328 putative active site [active] 486410006329 nucleotide binding site [chemical binding]; other site 486410006330 nudix motif; other site 486410006331 putative metal binding site [ion binding]; other site 486410006332 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 486410006333 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 486410006334 ring oligomerisation interface [polypeptide binding]; other site 486410006335 ATP/Mg binding site [chemical binding]; other site 486410006336 stacking interactions; other site 486410006337 hinge regions; other site 486410006338 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 486410006339 oligomerisation interface [polypeptide binding]; other site 486410006340 mobile loop; other site 486410006341 roof hairpin; other site 486410006342 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 486410006343 Clp amino terminal domain; Region: Clp_N; pfam02861 486410006344 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 486410006345 Walker A motif; other site 486410006346 ATP binding site [chemical binding]; other site 486410006347 Walker B motif; other site 486410006348 arginine finger; other site 486410006349 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 486410006350 Walker A motif; other site 486410006351 ATP binding site [chemical binding]; other site 486410006352 Walker B motif; other site 486410006353 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 486410006354 Transcriptional repressor of class III stress genes [Transcription]; Region: CtsR; COG4463 486410006355 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 486410006356 DNA-binding site [nucleotide binding]; DNA binding site 486410006357 RNA-binding motif; other site 486410006358 potential frameshift: common BLAST hit: gi|94992254|ref|YP_600353.1| transposase 486410006359 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 486410006360 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410006361 potential frameshift: common BLAST hit: gi|148554706|ref|YP_001262288.1| amidohydrolase 2 486410006362 Amidohydrolase; Region: Amidohydro_2; pfam04909 486410006363 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 486410006364 potential frameshift: common BLAST hit: gi|19745602|ref|NP_606738.1| IS1562 transposase 486410006365 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 486410006366 peroxiredoxin; Region: AhpC; TIGR03137 486410006367 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 486410006368 dimer interface [polypeptide binding]; other site 486410006369 decamer (pentamer of dimers) interface [polypeptide binding]; other site 486410006370 catalytic triad [active] 486410006371 peroxidatic and resolving cysteines [active] 486410006372 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 486410006373 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 486410006374 catalytic residue [active] 486410006375 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 486410006376 catalytic residues [active] 486410006377 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 486410006378 imidazolonepropionase; Validated; Region: PRK09356 486410006379 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 486410006380 active site 486410006381 urocanate hydratase; Provisional; Region: PRK05414 486410006382 Glutamate formiminotransferase [Amino acid transport and metabolism]; Region: COG3643 486410006383 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 486410006384 Formiminotransferase domain; Region: FTCD; pfam02971 486410006385 Methenyl tetrahydrofolate cyclohydrolase [Amino acid transport and metabolism]; Region: COG3404 486410006386 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 486410006387 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 486410006388 Potassium binding sites [ion binding]; other site 486410006389 Cesium cation binding sites [ion binding]; other site 486410006390 HutD; Region: HutD; cl01532 486410006391 amino acid transporter; Region: 2A0306; TIGR00909 486410006392 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 486410006393 active sites [active] 486410006394 tetramer interface [polypeptide binding]; other site 486410006395 formimidoylglutamase; Provisional; Region: PRK13775 486410006396 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 486410006397 putative active site [active] 486410006398 putative metal binding site [ion binding]; other site 486410006399 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 486410006400 Predicted ATPase [General function prediction only]; Region: COG3899 486410006401 AAA ATPase domain; Region: AAA_16; pfam13191 486410006402 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 486410006403 binding surface 486410006404 TPR motif; other site 486410006405 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 486410006406 rRNA interaction site [nucleotide binding]; other site 486410006407 S8 interaction site; other site 486410006408 putative laminin-1 binding site; other site 486410006409 elongation factor Ts; Provisional; Region: tsf; PRK09377 486410006410 UBA/TS-N domain; Region: UBA; pfam00627 486410006411 Elongation factor TS; Region: EF_TS; pfam00889 486410006412 Elongation factor TS; Region: EF_TS; pfam00889 486410006413 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 486410006414 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 486410006415 active site 486410006416 Zn binding site [ion binding]; other site 486410006417 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 486410006418 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 486410006419 Ca binding site [ion binding]; other site 486410006420 active site 486410006421 catalytic site [active] 486410006422 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 486410006423 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 486410006424 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 486410006425 active site turn [active] 486410006426 phosphorylation site [posttranslational modification] 486410006427 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 486410006428 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 486410006429 HPr interaction site; other site 486410006430 glycerol kinase (GK) interaction site [polypeptide binding]; other site 486410006431 active site 486410006432 phosphorylation site [posttranslational modification] 486410006433 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 486410006434 DNA-binding site [nucleotide binding]; DNA binding site 486410006435 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 486410006436 UTRA domain; Region: UTRA; pfam07702 486410006437 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 486410006438 Predicted transcriptional regulators [Transcription]; Region: COG1733 486410006439 similar to glyoxalase family protein [Streptococcus pyogenes MGAS6180] 486410006440 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3022 486410006441 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 486410006442 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 486410006443 FeS/SAM binding site; other site 486410006444 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 486410006445 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 486410006446 Coenzyme A binding pocket [chemical binding]; other site 486410006447 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 486410006448 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 486410006449 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 486410006450 ATP cone domain; Region: ATP-cone; pfam03477 486410006451 Class III ribonucleotide reductase; Region: RNR_III; cd01675 486410006452 effector binding site; other site 486410006453 active site 486410006454 Zn binding site [ion binding]; other site 486410006455 glycine loop; other site 486410006456 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 486410006457 hypothetical protein; Provisional; Region: PRK13678 486410006458 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 486410006459 hypothetical protein; Provisional; Region: PRK05473 486410006460 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 486410006461 ArsC family; Region: ArsC; pfam03960 486410006462 putative catalytic residues [active] 486410006463 thiol/disulfide switch; other site 486410006464 recombinase A; Provisional; Region: recA; PRK09354 486410006465 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 486410006466 hexamer interface [polypeptide binding]; other site 486410006467 Walker A motif; other site 486410006468 ATP binding site [chemical binding]; other site 486410006469 Walker B motif; other site 486410006470 competence damage-inducible protein A; Provisional; Region: PRK00549 486410006471 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 486410006472 putative MPT binding site; other site 486410006473 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 486410006474 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 486410006475 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 486410006476 active site 486410006477 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 486410006478 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 486410006479 RuvA N terminal domain; Region: RuvA_N; pfam01330 486410006480 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 486410006481 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 486410006482 Major Facilitator Superfamily; Region: MFS_1; pfam07690 486410006483 putative substrate translocation pore; other site 486410006484 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 486410006485 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 486410006486 ATP binding site [chemical binding]; other site 486410006487 Mg2+ binding site [ion binding]; other site 486410006488 G-X-G motif; other site 486410006489 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 486410006490 ATP binding site [chemical binding]; other site 486410006491 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 486410006492 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 486410006493 MutS domain I; Region: MutS_I; pfam01624 486410006494 MutS domain II; Region: MutS_II; pfam05188 486410006495 MutS domain III; Region: MutS_III; pfam05192 486410006496 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 486410006497 Walker A/P-loop; other site 486410006498 ATP binding site [chemical binding]; other site 486410006499 Q-loop/lid; other site 486410006500 ABC transporter signature motif; other site 486410006501 Walker B; other site 486410006502 D-loop; other site 486410006503 H-loop/switch region; other site 486410006504 Protein of unknown function (DUF964); Region: DUF964; cl01483 486410006505 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 486410006506 arginine repressor; Region: argR_whole; TIGR01529 486410006507 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 486410006508 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 486410006509 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 486410006510 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 486410006511 active site 486410006512 HIGH motif; other site 486410006513 KMSK motif region; other site 486410006514 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 486410006515 tRNA binding surface [nucleotide binding]; other site 486410006516 anticodon binding site; other site 486410006517 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 486410006518 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410006519 ABC transporter; Region: ABC_tran_2; pfam12848 486410006520 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410006521 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 486410006522 Uncharacterized conserved protein [Function unknown]; Region: COG1284 486410006523 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 486410006524 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 486410006525 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 486410006526 Uncharacterized conserved protein [Function unknown]; Region: COG1284 486410006527 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 486410006528 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 486410006529 Uncharacterized conserved protein [Function unknown]; Region: COG1284 486410006530 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 486410006531 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 486410006532 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 486410006533 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 486410006534 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 486410006535 dimer interface [polypeptide binding]; other site 486410006536 anticodon binding site; other site 486410006537 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 486410006538 homodimer interface [polypeptide binding]; other site 486410006539 motif 1; other site 486410006540 active site 486410006541 motif 2; other site 486410006542 GAD domain; Region: GAD; pfam02938 486410006543 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 486410006544 motif 3; other site 486410006545 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 486410006546 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 486410006547 dimer interface [polypeptide binding]; other site 486410006548 motif 1; other site 486410006549 active site 486410006550 motif 2; other site 486410006551 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 486410006552 anticodon binding site; other site 486410006553 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 486410006554 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 486410006555 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 486410006556 Cadmium resistance transporter; Region: Cad; pfam03596 486410006557 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 486410006558 putative DNA binding site [nucleotide binding]; other site 486410006559 putative Zn2+ binding site [ion binding]; other site 486410006560 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 486410006561 non-specific DNA binding site [nucleotide binding]; other site 486410006562 salt bridge; other site 486410006563 sequence-specific DNA binding site [nucleotide binding]; other site 486410006564 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 486410006565 AAA domain; Region: AAA_22; pfam13401 486410006566 Chloroplast import component protein (Tic20); Region: Tic20; cl09892 486410006567 Predicted membrane protein [Function unknown]; Region: COG2035 486410006568 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 486410006569 putative active site [active] 486410006570 putative CoA binding site [chemical binding]; other site 486410006571 nudix motif; other site 486410006572 metal binding site [ion binding]; metal-binding site 486410006573 Predicted transcriptional regulators [Transcription]; Region: COG1695 486410006574 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 486410006575 Predicted membrane protein [Function unknown]; Region: COG4709 486410006576 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 486410006577 Predicted membrane protein [Function unknown]; Region: COG1511 486410006578 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 486410006579 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 486410006580 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 486410006581 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 486410006582 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 486410006583 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 486410006584 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 486410006585 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 486410006586 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 486410006587 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; cl17257 486410006588 DNA binding residues [nucleotide binding] 486410006589 BRO family, N-terminal domain; Region: Bro-N; cl10591 486410006590 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 486410006591 sequence-specific DNA binding site [nucleotide binding]; other site 486410006592 salt bridge; other site 486410006593 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 486410006594 non-specific DNA binding site [nucleotide binding]; other site 486410006595 salt bridge; other site 486410006596 sequence-specific DNA binding site [nucleotide binding]; other site 486410006597 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 486410006598 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 486410006599 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 486410006600 Int/Topo IB signature motif; other site 486410006601 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 486410006602 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 486410006603 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 486410006604 RNA binding surface [nucleotide binding]; other site 486410006605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 486410006606 replicative DNA helicase; Provisional; Region: PRK05748 486410006607 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 486410006608 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 486410006609 Walker A motif; other site 486410006610 ATP binding site [chemical binding]; other site 486410006611 Walker B motif; other site 486410006612 DNA binding loops [nucleotide binding] 486410006613 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 486410006614 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 486410006615 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 486410006616 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 486410006617 DHH family; Region: DHH; pfam01368 486410006618 DHHA1 domain; Region: DHHA1; pfam02272 486410006619 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 486410006620 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 486410006621 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 486410006622 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 486410006623 nudix motif; other site 486410006624 MarC family integral membrane protein; Region: MarC; pfam01914 486410006625 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 486410006626 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 486410006627 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 486410006628 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 486410006629 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 486410006630 putative L-serine binding site [chemical binding]; other site 486410006631 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 486410006632 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 486410006633 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 486410006634 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 486410006635 active site 486410006636 motif I; other site 486410006637 motif II; other site 486410006638 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 486410006639 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 486410006640 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 486410006641 Walker A/P-loop; other site 486410006642 ATP binding site [chemical binding]; other site 486410006643 Q-loop/lid; other site 486410006644 ABC transporter signature motif; other site 486410006645 Walker B; other site 486410006646 D-loop; other site 486410006647 H-loop/switch region; other site 486410006648 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 486410006649 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 486410006650 Walker A/P-loop; other site 486410006651 ATP binding site [chemical binding]; other site 486410006652 Q-loop/lid; other site 486410006653 ABC transporter signature motif; other site 486410006654 Walker B; other site 486410006655 D-loop; other site 486410006656 H-loop/switch region; other site 486410006657 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 486410006658 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 486410006659 Helix-turn-helix domain; Region: HTH_25; pfam13413 486410006660 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 486410006661 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 486410006662 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 486410006663 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 486410006664 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 486410006665 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 486410006666 recF protein; Region: recf; TIGR00611 486410006667 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 486410006668 Walker A/P-loop; other site 486410006669 ATP binding site [chemical binding]; other site 486410006670 Q-loop/lid; other site 486410006671 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 486410006672 ABC transporter signature motif; other site 486410006673 Walker B; other site 486410006674 D-loop; other site 486410006675 H-loop/switch region; other site 486410006676 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 486410006677 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 486410006678 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 486410006679 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 486410006680 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 486410006681 active site 486410006682 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 486410006683 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 486410006684 active site 486410006685 HIGH motif; other site 486410006686 dimer interface [polypeptide binding]; other site 486410006687 KMSKS motif; other site 486410006688 Uncharacterized conserved protein [Function unknown]; Region: COG1284 486410006689 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 486410006690 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 486410006691 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 486410006692 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 486410006693 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410006694 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410006695 ABC transporter; Region: ABC_tran_2; pfam12848 486410006696 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 486410006697 Predicted membrane protein [Function unknown]; Region: COG4485 486410006698 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 486410006699 Integrase core domain; Region: rve; pfam00665 486410006700 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 486410006701 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 486410006702 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 486410006703 protein binding site [polypeptide binding]; other site 486410006704 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 486410006705 ParB-like nuclease domain; Region: ParBc; pfam02195 486410006706 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775