-- dump date 20140620_081811 -- class Genbank::misc_feature -- table misc_feature_note -- id note 617121000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 617121000002 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 617121000003 Walker A motif; other site 617121000004 ATP binding site [chemical binding]; other site 617121000005 Walker B motif; other site 617121000006 arginine finger; other site 617121000007 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 617121000008 DnaA box-binding interface [nucleotide binding]; other site 617121000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 617121000010 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 617121000011 putative DNA binding surface [nucleotide binding]; other site 617121000012 dimer interface [polypeptide binding]; other site 617121000013 beta-clamp/clamp loader binding surface; other site 617121000014 beta-clamp/translesion DNA polymerase binding surface; other site 617121000015 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 617121000016 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 617121000017 non-specific DNA binding site [nucleotide binding]; other site 617121000018 salt bridge; other site 617121000019 sequence-specific DNA binding site [nucleotide binding]; other site 617121000020 GTP-binding protein YchF; Reviewed; Region: PRK09601 617121000021 YchF GTPase; Region: YchF; cd01900 617121000022 G1 box; other site 617121000023 GTP/Mg2+ binding site [chemical binding]; other site 617121000024 Switch I region; other site 617121000025 G2 box; other site 617121000026 Switch II region; other site 617121000027 G3 box; other site 617121000028 G4 box; other site 617121000029 G5 box; other site 617121000030 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 617121000031 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 617121000032 putative active site [active] 617121000033 catalytic residue [active] 617121000034 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 617121000035 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 617121000036 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 617121000037 ATP binding site [chemical binding]; other site 617121000038 putative Mg++ binding site [ion binding]; other site 617121000039 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 617121000040 nucleotide binding region [chemical binding]; other site 617121000041 ATP-binding site [chemical binding]; other site 617121000042 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 617121000043 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 617121000044 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 617121000045 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 617121000046 Septum formation initiator; Region: DivIC; pfam04977 617121000047 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 617121000048 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 617121000049 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 617121000050 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 617121000051 Ligand Binding Site [chemical binding]; other site 617121000052 TilS substrate C-terminal domain; Region: TilS_C; smart00977 617121000053 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 617121000054 active site 617121000055 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 617121000056 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 617121000057 Walker A motif; other site 617121000058 ATP binding site [chemical binding]; other site 617121000059 Walker B motif; other site 617121000060 arginine finger; other site 617121000061 Peptidase family M41; Region: Peptidase_M41; pfam01434 617121000062 amino acid transporter; Region: 2A0306; TIGR00909 617121000063 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 617121000064 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 617121000065 Integrase core domain; Region: rve; pfam00665 617121000066 Surface antigen [General function prediction only]; Region: COG3942 617121000067 CHAP domain; Region: CHAP; pfam05257 617121000068 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 617121000069 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 617121000070 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 617121000071 active site 617121000072 Recombination protein O N terminal; Region: RecO_N; pfam11967 617121000073 DNA repair protein RecO; Region: reco; TIGR00613 617121000074 Recombination protein O C terminal; Region: RecO_C; pfam02565 617121000075 putative phosphate acyltransferase; Provisional; Region: PRK05331 617121000076 acyl carrier protein; Provisional; Region: PRK12449 617121000077 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 617121000078 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 617121000079 ATP binding site [chemical binding]; other site 617121000080 active site 617121000081 substrate binding site [chemical binding]; other site 617121000082 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 617121000083 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 617121000084 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 617121000085 dimerization interface [polypeptide binding]; other site 617121000086 ATP binding site [chemical binding]; other site 617121000087 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 617121000088 dimerization interface [polypeptide binding]; other site 617121000089 ATP binding site [chemical binding]; other site 617121000090 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 617121000091 putative active site [active] 617121000092 catalytic triad [active] 617121000093 amidophosphoribosyltransferase; Provisional; Region: PRK07272 617121000094 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 617121000095 active site 617121000096 tetramer interface [polypeptide binding]; other site 617121000097 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 617121000098 active site 617121000099 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 617121000100 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 617121000101 dimerization interface [polypeptide binding]; other site 617121000102 putative ATP binding site [chemical binding]; other site 617121000103 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 617121000104 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 617121000105 active site 617121000106 substrate binding site [chemical binding]; other site 617121000107 cosubstrate binding site; other site 617121000108 catalytic site [active] 617121000109 VanZ like family; Region: VanZ; pfam04892 617121000110 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 617121000111 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 617121000112 purine monophosphate binding site [chemical binding]; other site 617121000113 dimer interface [polypeptide binding]; other site 617121000114 putative catalytic residues [active] 617121000115 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 617121000116 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 617121000117 Surface antigen [General function prediction only]; Region: COG3942 617121000118 CHAP domain; Region: CHAP; pfam05257 617121000119 Bacterial SH3 domain; Region: SH3_5; pfam08460 617121000120 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 617121000121 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 617121000122 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 617121000123 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 617121000124 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 617121000125 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 617121000126 ATP-grasp domain; Region: ATP-grasp_4; cl17255 617121000127 Protein of unknown function DUF262; Region: DUF262; pfam03235 617121000128 Uncharacterized conserved protein [Function unknown]; Region: COG1479 617121000129 adenylosuccinate lyase; Provisional; Region: PRK07492 617121000130 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 617121000131 tetramer interface [polypeptide binding]; other site 617121000132 active site 617121000133 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 617121000134 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 617121000135 non-specific DNA binding site [nucleotide binding]; other site 617121000136 salt bridge; other site 617121000137 sequence-specific DNA binding site [nucleotide binding]; other site 617121000138 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 617121000139 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121000140 Transposase [DNA replication, recombination, and repair]; Region: COG5433 617121000141 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 617121000142 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 617121000143 Walker A motif; other site 617121000144 ATP binding site [chemical binding]; other site 617121000145 Walker B motif; other site 617121000146 arginine finger; other site 617121000147 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 617121000148 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 617121000149 Low molecular weight phosphatase family; Region: LMWPc; cd00115 617121000150 active site 617121000151 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 617121000152 MORN repeat; Region: MORN; cl14787 617121000153 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 617121000154 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 617121000155 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 617121000156 catalytic triad [active] 617121000157 catalytic triad [active] 617121000158 oxyanion hole [active] 617121000159 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 617121000160 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 617121000161 putative catalytic cysteine [active] 617121000162 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 617121000163 putative active site [active] 617121000164 metal binding site [ion binding]; metal-binding site 617121000165 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 617121000166 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 617121000167 NAD binding site [chemical binding]; other site 617121000168 substrate binding site [chemical binding]; other site 617121000169 catalytic Zn binding site [ion binding]; other site 617121000170 tetramer interface [polypeptide binding]; other site 617121000171 structural Zn binding site [ion binding]; other site 617121000172 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 617121000173 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 617121000174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 617121000175 catalytic residue [active] 617121000176 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 617121000177 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 617121000178 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 617121000179 Helix-turn-helix domain; Region: HTH_38; pfam13936 617121000180 Integrase core domain; Region: rve; pfam00665 617121000181 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 617121000182 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 617121000183 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 617121000184 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 617121000185 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 617121000186 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 617121000187 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 617121000188 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 617121000189 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 617121000190 putative translocon binding site; other site 617121000191 protein-rRNA interface [nucleotide binding]; other site 617121000192 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 617121000193 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 617121000194 G-X-X-G motif; other site 617121000195 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 617121000196 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 617121000197 23S rRNA interface [nucleotide binding]; other site 617121000198 5S rRNA interface [nucleotide binding]; other site 617121000199 putative antibiotic binding site [chemical binding]; other site 617121000200 L25 interface [polypeptide binding]; other site 617121000201 L27 interface [polypeptide binding]; other site 617121000202 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 617121000203 23S rRNA interface [nucleotide binding]; other site 617121000204 putative translocon interaction site; other site 617121000205 signal recognition particle (SRP54) interaction site; other site 617121000206 L23 interface [polypeptide binding]; other site 617121000207 trigger factor interaction site; other site 617121000208 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 617121000209 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 617121000210 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 617121000211 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 617121000212 RNA binding site [nucleotide binding]; other site 617121000213 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 617121000214 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 617121000215 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 617121000216 similar to rpsN for 30S ribosomal protein S14 [Streptococcus pyogenes MGAS8232] 617121000217 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 617121000218 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 617121000219 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 617121000220 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 617121000221 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 617121000222 5S rRNA interface [nucleotide binding]; other site 617121000223 L27 interface [polypeptide binding]; other site 617121000224 23S rRNA interface [nucleotide binding]; other site 617121000225 L5 interface [polypeptide binding]; other site 617121000226 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 617121000227 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 617121000228 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 617121000229 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 617121000230 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 617121000231 SecY translocase; Region: SecY; pfam00344 617121000232 adenylate kinase; Reviewed; Region: adk; PRK00279 617121000233 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 617121000234 AMP-binding site [chemical binding]; other site 617121000235 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 617121000236 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 617121000237 30S ribosomal protein S13; Region: bact_S13; TIGR03631 617121000238 30S ribosomal protein S11; Validated; Region: PRK05309 617121000239 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 617121000240 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 617121000241 alphaNTD homodimer interface [polypeptide binding]; other site 617121000242 alphaNTD - beta interaction site [polypeptide binding]; other site 617121000243 alphaNTD - beta' interaction site [polypeptide binding]; other site 617121000244 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 617121000245 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 617121000246 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 617121000247 Helix-turn-helix domain; Region: HTH_38; pfam13936 617121000248 Integrase core domain; Region: rve; pfam00665 617121000249 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 617121000250 Helix-turn-helix domain; Region: HTH_38; pfam13936 617121000251 Integrase core domain; Region: rve; pfam00665 617121000252 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 617121000253 nudix motif; other site 617121000254 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 617121000255 UbiA prenyltransferase family; Region: UbiA; pfam01040 617121000256 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 617121000257 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 617121000258 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 617121000259 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 617121000260 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 617121000261 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 617121000262 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121000263 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121000264 Walker A/P-loop; other site 617121000265 ATP binding site [chemical binding]; other site 617121000266 Q-loop/lid; other site 617121000267 ABC transporter signature motif; other site 617121000268 Walker B; other site 617121000269 D-loop; other site 617121000270 H-loop/switch region; other site 617121000271 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 617121000272 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121000273 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 617121000274 Walker A/P-loop; other site 617121000275 ATP binding site [chemical binding]; other site 617121000276 Q-loop/lid; other site 617121000277 ABC transporter signature motif; other site 617121000278 Walker B; other site 617121000279 D-loop; other site 617121000280 H-loop/switch region; other site 617121000281 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 617121000282 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 617121000283 substrate binding pocket [chemical binding]; other site 617121000284 chain length determination region; other site 617121000285 substrate-Mg2+ binding site; other site 617121000286 catalytic residues [active] 617121000287 aspartate-rich region 1; other site 617121000288 active site lid residues [active] 617121000289 aspartate-rich region 2; other site 617121000290 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 617121000291 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 617121000292 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 617121000293 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 617121000294 putative Zn2+ binding site [ion binding]; other site 617121000295 putative DNA binding site [nucleotide binding]; other site 617121000296 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 617121000297 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 617121000298 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 617121000299 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 617121000300 ABC-ATPase subunit interface; other site 617121000301 dimer interface [polypeptide binding]; other site 617121000302 putative PBP binding regions; other site 617121000303 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 617121000304 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 617121000305 active site 617121000306 HIGH motif; other site 617121000307 dimer interface [polypeptide binding]; other site 617121000308 KMSKS motif; other site 617121000309 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 617121000310 RNA binding surface [nucleotide binding]; other site 617121000311 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 617121000312 Transglycosylase; Region: Transgly; pfam00912 617121000313 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 617121000314 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 617121000315 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 617121000316 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 617121000317 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 617121000318 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 617121000319 RPB1 interaction site [polypeptide binding]; other site 617121000320 RPB10 interaction site [polypeptide binding]; other site 617121000321 RPB11 interaction site [polypeptide binding]; other site 617121000322 RPB3 interaction site [polypeptide binding]; other site 617121000323 RPB12 interaction site [polypeptide binding]; other site 617121000324 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 617121000325 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 617121000326 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 617121000327 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 617121000328 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 617121000329 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 617121000330 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 617121000331 G-loop; other site 617121000332 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 617121000333 DNA binding site [nucleotide binding] 617121000334 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 617121000335 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 617121000336 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 617121000337 Walker A motif; other site 617121000338 ATP binding site [chemical binding]; other site 617121000339 Walker B motif; other site 617121000340 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 617121000341 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 617121000342 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 617121000343 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 617121000344 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 617121000345 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 617121000346 Methyltransferase domain; Region: Methyltransf_31; pfam13847 617121000347 Methyltransferase domain; Region: Methyltransf_26; pfam13659 617121000348 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 617121000349 propionate/acetate kinase; Provisional; Region: PRK12379 617121000350 CAAX protease self-immunity; Region: Abi; pfam02517 617121000351 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 617121000352 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 617121000353 potential frameshift: common BLAST hit: gi|386316084|ref|YP_006012248.1| glutamyl aminopeptidase 617121000354 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 617121000355 M42 glutamyl aminopeptidase; Region: Peptidase_M42; cl17262 617121000356 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 617121000357 M42 glutamyl aminopeptidase; Region: Peptidase_M42; cl17262 617121000358 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 617121000359 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 617121000360 catalytic residues [active] 617121000361 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 617121000362 putative tRNA-binding site [nucleotide binding]; other site 617121000363 Methyltransferase domain; Region: Methyltransf_31; pfam13847 617121000364 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 617121000365 S-adenosylmethionine binding site [chemical binding]; other site 617121000366 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 617121000367 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 617121000368 dimer interface [polypeptide binding]; other site 617121000369 ssDNA binding site [nucleotide binding]; other site 617121000370 tetramer (dimer of dimers) interface [polypeptide binding]; other site 617121000371 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 617121000372 zinc binding site [ion binding]; other site 617121000373 putative ligand binding site [chemical binding]; other site 617121000374 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 617121000375 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 617121000376 zinc binding site [ion binding]; other site 617121000377 putative ligand binding site [chemical binding]; other site 617121000378 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 617121000379 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 617121000380 TM-ABC transporter signature motif; other site 617121000381 Transposase; Region: DEDD_Tnp_IS110; pfam01548 617121000382 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 617121000383 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 617121000384 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 617121000385 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121000386 Walker A/P-loop; other site 617121000387 ATP binding site [chemical binding]; other site 617121000388 Q-loop/lid; other site 617121000389 ABC transporter signature motif; other site 617121000390 Walker B; other site 617121000391 D-loop; other site 617121000392 H-loop/switch region; other site 617121000393 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 617121000394 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 617121000395 Substrate-binding site [chemical binding]; other site 617121000396 Substrate specificity [chemical binding]; other site 617121000397 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 617121000398 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 617121000399 FMN binding site [chemical binding]; other site 617121000400 active site 617121000401 catalytic residues [active] 617121000402 substrate binding site [chemical binding]; other site 617121000403 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 617121000404 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 617121000405 dimerization interface [polypeptide binding]; other site 617121000406 domain crossover interface; other site 617121000407 redox-dependent activation switch; other site 617121000408 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 617121000409 Mga helix-turn-helix domain; Region: Mga; pfam05043 617121000410 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 617121000411 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 617121000412 TQXA domain; Region: TQXA_dom; TIGR03934 617121000413 Fibronectin binding repeat; Region: Fn_bind; pfam02986 617121000414 Fibronectin binding repeat; Region: Fn_bind; pfam02986 617121000415 Fibronectin binding repeat; Region: Fn_bind; pfam02986 617121000416 Fibronectin binding repeat; Region: Fn_bind; pfam02986 617121000417 Fibronectin binding repeat; Region: Fn_bind; pfam02986 617121000418 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 617121000419 Cna protein B-type domain; Region: Cna_B; pfam05738 617121000420 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 617121000421 active site 617121000422 catalytic site [active] 617121000423 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 617121000424 active site 617121000425 catalytic site [active] 617121000426 Cna protein B-type domain; Region: Cna_B; pfam05738 617121000427 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 617121000428 metal ion-dependent adhesion site (MIDAS); other site 617121000429 Cna protein B-type domain; Region: Cna_B; pfam05738 617121000430 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 617121000431 catalytic site [active] 617121000432 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 617121000433 active site 617121000434 catalytic site [active] 617121000435 Cna protein B-type domain; Region: Cna_B; pfam05738 617121000436 Cna protein B-type domain; Region: Cna_B; pfam05738 617121000437 Cna protein B-type domain; Region: Cna_B; pfam05738 617121000438 Cna protein B-type domain; Region: Cna_B; pfam05738 617121000439 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 617121000440 Cna protein B-type domain; Region: Cna_B; pfam05738 617121000441 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 617121000442 YheO-like PAS domain; Region: PAS_6; pfam08348 617121000443 HTH domain; Region: HTH_22; pfam13309 617121000444 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 617121000445 homotrimer interaction site [polypeptide binding]; other site 617121000446 putative active site [active] 617121000447 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 617121000448 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 617121000449 Uncharacterized protein involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TelA; COG3853 617121000450 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 617121000451 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 617121000452 GDP-binding site [chemical binding]; other site 617121000453 ACT binding site; other site 617121000454 IMP binding site; other site 617121000455 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 617121000456 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 617121000457 ligand binding site [chemical binding]; other site 617121000458 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 617121000459 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 617121000460 FeS/SAM binding site; other site 617121000461 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 617121000462 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 617121000463 DNA-binding site [nucleotide binding]; DNA binding site 617121000464 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 617121000465 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 617121000466 Helix-turn-helix domain; Region: HTH_28; pfam13518 617121000467 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 617121000468 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 617121000469 active site 617121000470 methionine cluster; other site 617121000471 phosphorylation site [posttranslational modification] 617121000472 metal binding site [ion binding]; metal-binding site 617121000473 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 617121000474 active site 617121000475 P-loop; other site 617121000476 phosphorylation site [posttranslational modification] 617121000477 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 617121000478 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 617121000479 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 617121000480 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 617121000481 dimer interface [polypeptide binding]; other site 617121000482 active site 617121000483 glycine loop; other site 617121000484 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 617121000485 active site 617121000486 intersubunit interactions; other site 617121000487 catalytic residue [active] 617121000488 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 617121000489 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 617121000490 dimer interface [polypeptide binding]; other site 617121000491 active site 617121000492 metal binding site [ion binding]; metal-binding site 617121000493 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 617121000494 tetramer interfaces [polypeptide binding]; other site 617121000495 binuclear metal-binding site [ion binding]; other site 617121000496 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 617121000497 putative dimer interface [polypeptide binding]; other site 617121000498 catalytic triad [active] 617121000499 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 617121000500 putative deacylase active site [active] 617121000501 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 617121000502 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 617121000503 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 617121000504 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 617121000505 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 617121000506 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 617121000507 ligand binding site [chemical binding]; other site 617121000508 Predicted membrane protein [Function unknown]; Region: COG2364 617121000509 Maf-like protein; Region: Maf; pfam02545 617121000510 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 617121000511 putative active site [active] 617121000512 similar to phosphoglycerate mutase family protein [Streptococcus equi subsp. zooepidemicus MGCS10565] 617121000513 topology modulation protein; Provisional; Region: PRK07261 617121000514 AAA domain; Region: AAA_17; pfam13207 617121000515 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 617121000516 Coenzyme A binding pocket [chemical binding]; other site 617121000517 Radical SAM superfamily; Region: Radical_SAM; pfam04055 617121000518 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 617121000519 FeS/SAM binding site; other site 617121000520 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121000521 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121000522 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 617121000523 Walker A/P-loop; other site 617121000524 ATP binding site [chemical binding]; other site 617121000525 Q-loop/lid; other site 617121000526 ABC transporter signature motif; other site 617121000527 Walker B; other site 617121000528 D-loop; other site 617121000529 H-loop/switch region; other site 617121000530 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 617121000531 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 617121000532 catalytic core [active] 617121000533 recombination factor protein RarA; Reviewed; Region: PRK13342 617121000534 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 617121000535 Walker A motif; other site 617121000536 ATP binding site [chemical binding]; other site 617121000537 Walker B motif; other site 617121000538 arginine finger; other site 617121000539 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 617121000540 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 617121000541 Glutamine amidotransferase class-I; Region: GATase; pfam00117 617121000542 glutamine binding [chemical binding]; other site 617121000543 catalytic triad [active] 617121000544 aminodeoxychorismate synthase; Provisional; Region: PRK07508 617121000545 chorismate binding enzyme; Region: Chorismate_bind; cl10555 617121000546 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 617121000547 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 617121000548 substrate-cofactor binding pocket; other site 617121000549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 617121000550 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 617121000551 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 617121000552 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 617121000553 S-adenosylmethionine binding site [chemical binding]; other site 617121000554 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 617121000555 RNA methyltransferase, RsmE family; Region: TIGR00046 617121000556 Transcriptional regulators [Transcription]; Region: PurR; COG1609 617121000557 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 617121000558 DNA binding site [nucleotide binding] 617121000559 domain linker motif; other site 617121000560 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 617121000561 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 617121000562 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 617121000563 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 617121000564 active site turn [active] 617121000565 phosphorylation site [posttranslational modification] 617121000566 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 617121000567 HPr interaction site; other site 617121000568 glycerol kinase (GK) interaction site [polypeptide binding]; other site 617121000569 active site 617121000570 phosphorylation site [posttranslational modification] 617121000571 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 617121000572 putative catalytic site [active] 617121000573 putative metal binding site [ion binding]; other site 617121000574 putative phosphate binding site [ion binding]; other site 617121000575 hypothetical protein; Provisional; Region: PRK06762 617121000576 AAA domain; Region: AAA_33; pfam13671 617121000577 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 617121000578 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 617121000579 putative oligomer interface [polypeptide binding]; other site 617121000580 putative active site [active] 617121000581 metal binding site [ion binding]; metal-binding site 617121000582 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 617121000583 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 617121000584 active site 617121000585 flavoprotein NrdI; Provisional; Region: PRK02551 617121000586 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 617121000587 Mga helix-turn-helix domain; Region: Mga; pfam05043 617121000588 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 617121000589 IncA protein; Region: IncA; pfam04156 617121000590 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 617121000591 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 617121000592 Zn2+ binding site [ion binding]; other site 617121000593 Mg2+ binding site [ion binding]; other site 617121000594 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 617121000595 synthetase active site [active] 617121000596 NTP binding site [chemical binding]; other site 617121000597 metal binding site [ion binding]; metal-binding site 617121000598 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 617121000599 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 617121000600 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 617121000601 putative active site [active] 617121000602 dimerization interface [polypeptide binding]; other site 617121000603 putative tRNAtyr binding site [nucleotide binding]; other site 617121000604 Staphylokinase/Streptokinase family; Region: Staphylokinase; pfam02821 617121000605 Staphylokinase/Streptokinase family; Region: Staphylokinase; pfam02821 617121000606 Staphylokinase/Streptokinase family; Region: Staphylokinase; pfam02821 617121000607 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 617121000608 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 617121000609 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 617121000610 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 617121000611 Walker A/P-loop; other site 617121000612 ATP binding site [chemical binding]; other site 617121000613 Q-loop/lid; other site 617121000614 ABC transporter signature motif; other site 617121000615 Walker B; other site 617121000616 D-loop; other site 617121000617 H-loop/switch region; other site 617121000618 TOBE domain; Region: TOBE; pfam03459 617121000619 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 617121000620 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 617121000621 Ca binding site [ion binding]; other site 617121000622 active site 617121000623 catalytic site [active] 617121000624 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 617121000625 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 617121000626 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 617121000627 carbohydrate binding site [chemical binding]; other site 617121000628 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 617121000629 carbohydrate binding site [chemical binding]; other site 617121000630 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 617121000631 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 617121000632 Ca binding site [ion binding]; other site 617121000633 active site 617121000634 catalytic site [active] 617121000635 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 617121000636 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 617121000637 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 617121000638 catalytic residues [active] 617121000639 preprotein translocase subunit YajC; Validated; Region: yajC; PRK06531 617121000640 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 617121000641 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 617121000642 catalytic residue [active] 617121000643 putative FPP diphosphate binding site; other site 617121000644 putative FPP binding hydrophobic cleft; other site 617121000645 dimer interface [polypeptide binding]; other site 617121000646 putative IPP diphosphate binding site; other site 617121000647 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 617121000648 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 617121000649 RIP metalloprotease RseP; Region: TIGR00054 617121000650 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 617121000651 active site 617121000652 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 617121000653 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 617121000654 putative substrate binding region [chemical binding]; other site 617121000655 prolyl-tRNA synthetase; Provisional; Region: PRK09194 617121000656 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 617121000657 motif 1; other site 617121000658 dimer interface [polypeptide binding]; other site 617121000659 active site 617121000660 motif 2; other site 617121000661 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 617121000662 putative deacylase active site [active] 617121000663 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 617121000664 active site 617121000665 motif 3; other site 617121000666 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 617121000667 anticodon binding site; other site 617121000668 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 617121000669 DNA polymerase III PolC; Validated; Region: polC; PRK00448 617121000670 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 617121000671 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 617121000672 generic binding surface II; other site 617121000673 generic binding surface I; other site 617121000674 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 617121000675 active site 617121000676 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 617121000677 active site 617121000678 catalytic site [active] 617121000679 substrate binding site [chemical binding]; other site 617121000680 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 617121000681 putative PHP Thumb interface [polypeptide binding]; other site 617121000682 active site 617121000683 MarR family; Region: MarR_2; cl17246 617121000684 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 617121000685 Predicted flavoprotein [General function prediction only]; Region: COG0431 617121000686 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 617121000687 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 617121000688 active site 617121000689 catalytic residues [active] 617121000690 metal binding site [ion binding]; metal-binding site 617121000691 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 617121000692 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 617121000693 ligand binding site [chemical binding]; other site 617121000694 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 617121000695 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 617121000696 16S/18S rRNA binding site [nucleotide binding]; other site 617121000697 S13e-L30e interaction site [polypeptide binding]; other site 617121000698 25S rRNA binding site [nucleotide binding]; other site 617121000699 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 617121000700 PRD domain; Region: PRD; pfam00874 617121000701 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 617121000702 active site 617121000703 P-loop; other site 617121000704 phosphorylation site [posttranslational modification] 617121000705 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 617121000706 active site 617121000707 phosphorylation site [posttranslational modification] 617121000708 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 617121000709 active site 617121000710 P-loop; other site 617121000711 phosphorylation site [posttranslational modification] 617121000712 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 617121000713 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 617121000714 active site 617121000715 intersubunit interactions; other site 617121000716 catalytic residue [active] 617121000717 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 617121000718 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 617121000719 RNase E interface [polypeptide binding]; other site 617121000720 trimer interface [polypeptide binding]; other site 617121000721 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 617121000722 RNase E interface [polypeptide binding]; other site 617121000723 trimer interface [polypeptide binding]; other site 617121000724 active site 617121000725 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 617121000726 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 617121000727 RNA binding site [nucleotide binding]; other site 617121000728 domain interface; other site 617121000729 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 617121000730 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 617121000731 trimer interface [polypeptide binding]; other site 617121000732 active site 617121000733 substrate binding site [chemical binding]; other site 617121000734 CoA binding site [chemical binding]; other site 617121000735 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 617121000736 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 617121000737 active site 617121000738 HIGH motif; other site 617121000739 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 617121000740 KMSKS motif; other site 617121000741 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 617121000742 tRNA binding surface [nucleotide binding]; other site 617121000743 anticodon binding site; other site 617121000744 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 617121000745 active site 617121000746 metal binding site [ion binding]; metal-binding site 617121000747 dimerization interface [polypeptide binding]; other site 617121000748 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 617121000749 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 617121000750 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 617121000751 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 617121000752 Predicted RNA-binding protein containing a PIN domain [General function prediction only]; Region: COG3688 617121000753 EDD domain protein, DegV family; Region: DegV; TIGR00762 617121000754 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 617121000755 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 617121000756 Helix-turn-helix domain; Region: HTH_38; pfam13936 617121000757 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 617121000758 23S rRNA interface [nucleotide binding]; other site 617121000759 L3 interface [polypeptide binding]; other site 617121000760 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 617121000761 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 617121000762 active site 617121000763 DNA binding site [nucleotide binding] 617121000764 Int/Topo IB signature motif; other site 617121000765 Surface antigen [General function prediction only]; Region: COG3942 617121000766 CHAP domain; Region: CHAP; pfam05257 617121000767 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 617121000768 AAA-like domain; Region: AAA_10; pfam12846 617121000769 TcpE family; Region: TcpE; pfam12648 617121000770 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 617121000771 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 617121000772 non-specific DNA binding site [nucleotide binding]; other site 617121000773 salt bridge; other site 617121000774 sequence-specific DNA binding site [nucleotide binding]; other site 617121000775 Replication initiation factor; Region: Rep_trans; pfam02486 617121000776 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 617121000777 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 617121000778 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121000779 Transposase [DNA replication, recombination, and repair]; Region: COG5433 617121000780 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 617121000781 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 617121000782 non-specific DNA binding site [nucleotide binding]; other site 617121000783 salt bridge; other site 617121000784 sequence-specific DNA binding site [nucleotide binding]; other site 617121000785 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 617121000786 Domain of unknown function (DUF955); Region: DUF955; pfam06114 617121000787 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 617121000788 sequence-specific DNA binding site [nucleotide binding]; other site 617121000789 salt bridge; other site 617121000790 Predicted transcriptional regulator [Transcription]; Region: COG2932 617121000791 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 617121000792 Catalytic site [active] 617121000793 DNA polymerase IV; Reviewed; Region: PRK03103 617121000794 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 617121000795 active site 617121000796 DNA binding site [nucleotide binding] 617121000797 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 617121000798 Penicillinase repressor; Region: Pencillinase_R; pfam03965 617121000799 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 617121000800 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 617121000801 Soluble P-type ATPase [General function prediction only]; Region: COG4087 617121000802 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 617121000803 Cadmium resistance transporter; Region: Cad; pfam03596 617121000804 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 617121000805 putative DNA binding site [nucleotide binding]; other site 617121000806 putative Zn2+ binding site [ion binding]; other site 617121000807 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 617121000808 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 617121000809 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 617121000810 active site 617121000811 DNA binding site [nucleotide binding] 617121000812 Int/Topo IB signature motif; other site 617121000813 Plasmid replication protein; Region: Rep_2; pfam01719 617121000814 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 617121000815 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 617121000816 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 617121000817 DNA methylase; Region: N6_N4_Mtase; pfam01555 617121000818 DNA methylase; Region: N6_N4_Mtase; pfam01555 617121000819 potential frameshift: common BLAST hit: gi|114566984|ref|YP_754138.1| superfamily II DNA/RNA helicase 617121000820 DEAD-like helicases superfamily; Region: DEXDc; smart00487 617121000821 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 617121000822 ATP binding site [chemical binding]; other site 617121000823 putative Mg++ binding site [ion binding]; other site 617121000824 Domain of unknown function (DUF955); Region: DUF955; pfam06114 617121000825 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 617121000826 non-specific DNA binding site [nucleotide binding]; other site 617121000827 salt bridge; other site 617121000828 sequence-specific DNA binding site [nucleotide binding]; other site 617121000829 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 617121000830 DNA binding site [nucleotide binding] 617121000831 active site 617121000832 Int/Topo IB signature motif; other site 617121000833 catalytic residues [active] 617121000834 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 617121000835 PRD domain; Region: PRD; pfam00874 617121000836 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 617121000837 active site 617121000838 P-loop; other site 617121000839 phosphorylation site [posttranslational modification] 617121000840 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 617121000841 active site 617121000842 phosphorylation site [posttranslational modification] 617121000843 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 617121000844 active site 617121000845 phosphorylation site [posttranslational modification] 617121000846 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 617121000847 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 617121000848 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 617121000849 intersubunit interface [polypeptide binding]; other site 617121000850 active site 617121000851 zinc binding site [ion binding]; other site 617121000852 Na+ binding site [ion binding]; other site 617121000853 triosephosphate isomerase; Provisional; Region: PRK04302 617121000854 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 617121000855 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 617121000856 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 617121000857 active site 617121000858 motif I; other site 617121000859 motif II; other site 617121000860 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 617121000861 Helix-turn-helix domain; Region: HTH_38; pfam13936 617121000862 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 617121000863 aspartate kinase; Validated; Region: PRK08373 617121000864 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 617121000865 putative catalytic residues [active] 617121000866 putative nucleotide binding site [chemical binding]; other site 617121000867 putative aspartate binding site [chemical binding]; other site 617121000868 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 617121000869 allosteric regulatory residue; other site 617121000870 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 617121000871 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 617121000872 dimerization interface 3.5A [polypeptide binding]; other site 617121000873 active site 617121000874 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 617121000875 dimer interface [polypeptide binding]; other site 617121000876 substrate binding site [chemical binding]; other site 617121000877 ATP binding site [chemical binding]; other site 617121000878 Predicted membrane protein [Function unknown]; Region: COG4720 617121000879 hypothetical protein; Provisional; Region: PRK13690 617121000880 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 617121000881 Mechanosensitive ion channel; Region: MS_channel; pfam00924 617121000882 similar to alpha-amylase precursor AmyE [Streptococcus equi subsp. zooepidemicus MGCS10565]; truncated alpha-amylase precursor 617121000883 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 617121000884 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 617121000885 active site 617121000886 Ca binding site [ion binding]; other site 617121000887 catalytic site [active] 617121000888 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 617121000889 trigger factor; Provisional; Region: tig; PRK01490 617121000890 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 617121000891 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 617121000892 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 617121000893 CTP synthetase; Validated; Region: pyrG; PRK05380 617121000894 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 617121000895 Catalytic site [active] 617121000896 active site 617121000897 UTP binding site [chemical binding]; other site 617121000898 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 617121000899 active site 617121000900 putative oxyanion hole; other site 617121000901 catalytic triad [active] 617121000902 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 617121000903 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 617121000904 Histidine kinase; Region: His_kinase; pfam06580 617121000905 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 617121000906 ATP binding site [chemical binding]; other site 617121000907 Mg2+ binding site [ion binding]; other site 617121000908 G-X-G motif; other site 617121000909 two-component response regulator; Provisional; Region: PRK14084 617121000910 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 617121000911 active site 617121000912 phosphorylation site [posttranslational modification] 617121000913 intermolecular recognition site; other site 617121000914 dimerization interface [polypeptide binding]; other site 617121000915 LytTr DNA-binding domain; Region: LytTR; smart00850 617121000916 LrgA family; Region: LrgA; cl00608 617121000917 antiholin-like protein LrgB; Provisional; Region: PRK04288 617121000918 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 617121000919 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 617121000920 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 617121000921 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 617121000922 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 617121000923 intersubunit interface [polypeptide binding]; other site 617121000924 active site 617121000925 zinc binding site [ion binding]; other site 617121000926 Na+ binding site [ion binding]; other site 617121000927 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 617121000928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 617121000929 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 617121000930 DAK2 domain; Region: Dak2; pfam02734 617121000931 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 617121000932 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 617121000933 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 617121000934 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121000935 Walker A/P-loop; other site 617121000936 ATP binding site [chemical binding]; other site 617121000937 Q-loop/lid; other site 617121000938 ABC transporter signature motif; other site 617121000939 Walker B; other site 617121000940 D-loop; other site 617121000941 H-loop/switch region; other site 617121000942 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 617121000943 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 617121000944 substrate binding pocket [chemical binding]; other site 617121000945 membrane-bound complex binding site; other site 617121000946 hinge residues; other site 617121000947 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 617121000948 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 617121000949 dimer interface [polypeptide binding]; other site 617121000950 conserved gate region; other site 617121000951 putative PBP binding loops; other site 617121000952 ABC-ATPase subunit interface; other site 617121000953 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 617121000954 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 617121000955 adaptor protein; Provisional; Region: PRK02315 617121000956 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 617121000957 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 617121000958 Mg++ binding site [ion binding]; other site 617121000959 putative catalytic motif [active] 617121000960 substrate binding site [chemical binding]; other site 617121000961 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 617121000962 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 617121000963 Walker A/P-loop; other site 617121000964 ATP binding site [chemical binding]; other site 617121000965 Q-loop/lid; other site 617121000966 ABC transporter signature motif; other site 617121000967 Walker B; other site 617121000968 D-loop; other site 617121000969 H-loop/switch region; other site 617121000970 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 617121000971 FeS assembly protein SufD; Region: sufD; TIGR01981 617121000972 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 617121000973 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 617121000974 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 617121000975 catalytic residue [active] 617121000976 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 617121000977 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 617121000978 trimerization site [polypeptide binding]; other site 617121000979 active site 617121000980 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 617121000981 FeS assembly protein SufB; Region: sufB; TIGR01980 617121000982 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 617121000983 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 617121000984 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 617121000985 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 617121000986 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 617121000987 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 617121000988 peptide binding site [polypeptide binding]; other site 617121000989 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 617121000990 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 617121000991 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 617121000992 dimer interface [polypeptide binding]; other site 617121000993 conserved gate region; other site 617121000994 putative PBP binding loops; other site 617121000995 ABC-ATPase subunit interface; other site 617121000996 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 617121000997 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 617121000998 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 617121000999 dimer interface [polypeptide binding]; other site 617121001000 conserved gate region; other site 617121001001 putative PBP binding loops; other site 617121001002 ABC-ATPase subunit interface; other site 617121001003 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 617121001004 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 617121001005 Walker A/P-loop; other site 617121001006 ATP binding site [chemical binding]; other site 617121001007 Q-loop/lid; other site 617121001008 ABC transporter signature motif; other site 617121001009 Walker B; other site 617121001010 D-loop; other site 617121001011 H-loop/switch region; other site 617121001012 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 617121001013 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 617121001014 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 617121001015 Walker A/P-loop; other site 617121001016 ATP binding site [chemical binding]; other site 617121001017 Q-loop/lid; other site 617121001018 ABC transporter signature motif; other site 617121001019 Walker B; other site 617121001020 D-loop; other site 617121001021 H-loop/switch region; other site 617121001022 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 617121001023 similar to N-terminal of transposase [Streptococcus pyogenes MGAS10394]; transposase and inactivated derivatives, IS30family [DNA replication, recombination, andrepair];COG2826 617121001024 potential frameshift: common BLAST hit: gi|19746948|ref|NP_608084.1| transposase 617121001025 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 617121001026 Helix-turn-helix domain; Region: HTH_38; pfam13936 617121001027 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 617121001028 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 617121001029 active site 617121001030 motif I; other site 617121001031 motif II; other site 617121001032 GTPase YqeH; Provisional; Region: PRK13796 617121001033 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 617121001034 GTP/Mg2+ binding site [chemical binding]; other site 617121001035 G4 box; other site 617121001036 G5 box; other site 617121001037 G1 box; other site 617121001038 Switch I region; other site 617121001039 G2 box; other site 617121001040 G3 box; other site 617121001041 Switch II region; other site 617121001042 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 617121001043 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 617121001044 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 617121001045 active site 617121001046 (T/H)XGH motif; other site 617121001047 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 617121001048 Zn2+ binding site [ion binding]; other site 617121001049 Mg2+ binding site [ion binding]; other site 617121001050 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 617121001051 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 617121001052 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 617121001053 S-adenosylmethionine binding site [chemical binding]; other site 617121001054 hypothetical protein; Provisional; Region: PRK13670 617121001055 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 617121001056 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 617121001057 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 617121001058 DNA binding residues [nucleotide binding] 617121001059 dimer interface [polypeptide binding]; other site 617121001060 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 617121001061 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 617121001062 biotin synthase; Region: bioB; TIGR00433 617121001063 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 617121001064 FeS/SAM binding site; other site 617121001065 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 617121001066 hypothetical protein; Provisional; Region: PRK12378 617121001067 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 617121001068 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 617121001069 substrate binding pocket [chemical binding]; other site 617121001070 membrane-bound complex binding site; other site 617121001071 hinge residues; other site 617121001072 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 617121001073 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 617121001074 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 617121001075 hypothetical protein; Provisional; Region: PRK06446 617121001076 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 617121001077 metal binding site [ion binding]; metal-binding site 617121001078 dimer interface [polypeptide binding]; other site 617121001079 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 617121001080 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 617121001081 Walker A/P-loop; other site 617121001082 ATP binding site [chemical binding]; other site 617121001083 Q-loop/lid; other site 617121001084 ABC transporter signature motif; other site 617121001085 Walker B; other site 617121001086 D-loop; other site 617121001087 H-loop/switch region; other site 617121001088 NIL domain; Region: NIL; pfam09383 617121001089 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 617121001090 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 617121001091 serine/threonine transporter SstT; Provisional; Region: PRK13628 617121001092 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 617121001093 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 617121001094 TrkA-N domain; Region: TrkA_N; pfam02254 617121001095 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 617121001096 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 617121001097 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 617121001098 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 617121001099 S-adenosylmethionine binding site [chemical binding]; other site 617121001100 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 617121001101 heat shock protein HtpX; Provisional; Region: PRK04897 617121001102 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 617121001103 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 617121001104 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 617121001105 active site 617121001106 phosphorylation site [posttranslational modification] 617121001107 intermolecular recognition site; other site 617121001108 dimerization interface [polypeptide binding]; other site 617121001109 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 617121001110 DNA binding site [nucleotide binding] 617121001111 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 617121001112 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 617121001113 dimerization interface [polypeptide binding]; other site 617121001114 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 617121001115 dimer interface [polypeptide binding]; other site 617121001116 phosphorylation site [posttranslational modification] 617121001117 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 617121001118 ATP binding site [chemical binding]; other site 617121001119 Mg2+ binding site [ion binding]; other site 617121001120 G-X-G motif; other site 617121001121 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 617121001122 ATP cone domain; Region: ATP-cone; pfam03477 617121001123 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 617121001124 primosomal protein DnaI; Reviewed; Region: PRK08939 617121001125 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 617121001126 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 617121001127 Walker A motif; other site 617121001128 ATP binding site [chemical binding]; other site 617121001129 Walker B motif; other site 617121001130 GTP-binding protein Der; Reviewed; Region: PRK00093 617121001131 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 617121001132 G1 box; other site 617121001133 GTP/Mg2+ binding site [chemical binding]; other site 617121001134 Switch I region; other site 617121001135 G2 box; other site 617121001136 Switch II region; other site 617121001137 G3 box; other site 617121001138 G4 box; other site 617121001139 G5 box; other site 617121001140 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 617121001141 G1 box; other site 617121001142 GTP/Mg2+ binding site [chemical binding]; other site 617121001143 Switch I region; other site 617121001144 G2 box; other site 617121001145 G3 box; other site 617121001146 Switch II region; other site 617121001147 G4 box; other site 617121001148 G5 box; other site 617121001149 SWIM zinc finger; Region: SWIM; pfam04434 617121001150 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 617121001151 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 617121001152 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 617121001153 ATP binding site [chemical binding]; other site 617121001154 putative Mg++ binding site [ion binding]; other site 617121001155 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 617121001156 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 617121001157 nucleotide binding region [chemical binding]; other site 617121001158 ATP-binding site [chemical binding]; other site 617121001159 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 617121001160 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 617121001161 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 617121001162 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 617121001163 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 617121001164 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 617121001165 Coenzyme A binding pocket [chemical binding]; other site 617121001166 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 617121001167 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 617121001168 dimerization interface [polypeptide binding]; other site 617121001169 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 617121001170 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 617121001171 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 617121001172 OxaA-like protein precursor; Provisional; Region: PRK02463 617121001173 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 617121001174 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121001175 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 617121001176 acylphosphatase; Provisional; Region: PRK14434 617121001177 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 617121001178 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 617121001179 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 617121001180 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 617121001181 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 617121001182 Zn2+ binding site [ion binding]; other site 617121001183 Mg2+ binding site [ion binding]; other site 617121001184 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 617121001185 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 617121001186 glutamate racemase; Provisional; Region: PRK00865 617121001187 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 617121001188 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 617121001189 active site 617121001190 dimerization interface [polypeptide binding]; other site 617121001191 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 617121001192 active site 617121001193 metal binding site [ion binding]; metal-binding site 617121001194 homotetramer interface [polypeptide binding]; other site 617121001195 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 617121001196 FOG: CBS domain [General function prediction only]; Region: COG0517 617121001197 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 617121001198 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 617121001199 active site 617121001200 catalytic residues [active] 617121001201 DNA binding site [nucleotide binding] 617121001202 Int/Topo IB signature motif; other site 617121001203 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 617121001204 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 617121001205 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 617121001206 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 617121001207 RNA binding surface [nucleotide binding]; other site 617121001208 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 617121001209 active site 617121001210 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 617121001211 Helix-turn-helix domain; Region: HTH_38; pfam13936 617121001212 Integrase core domain; Region: rve; pfam00665 617121001213 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 617121001214 Predicted membrane protein [Function unknown]; Region: COG3601 617121001215 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 617121001216 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 617121001217 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 617121001218 active site 617121001219 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 617121001220 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 617121001221 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 617121001222 Domain of unknown function DUF21; Region: DUF21; pfam01595 617121001223 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 617121001224 Transporter associated domain; Region: CorC_HlyC; pfam03471 617121001225 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 617121001226 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 617121001227 FeS/SAM binding site; other site 617121001228 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 617121001229 DHH family; Region: DHH; pfam01368 617121001230 DHHA2 domain; Region: DHHA2; pfam02833 617121001231 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 617121001232 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 617121001233 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 617121001234 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 617121001235 ABC-ATPase subunit interface; other site 617121001236 dimer interface [polypeptide binding]; other site 617121001237 putative PBP binding regions; other site 617121001238 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 617121001239 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 617121001240 ABC-ATPase subunit interface; other site 617121001241 dimer interface [polypeptide binding]; other site 617121001242 putative PBP binding regions; other site 617121001243 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 617121001244 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 617121001245 putative ligand binding residues [chemical binding]; other site 617121001246 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 617121001247 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 617121001248 Walker A/P-loop; other site 617121001249 ATP binding site [chemical binding]; other site 617121001250 Q-loop/lid; other site 617121001251 ABC transporter signature motif; other site 617121001252 Walker B; other site 617121001253 D-loop; other site 617121001254 H-loop/switch region; other site 617121001255 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 617121001256 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 617121001257 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 617121001258 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 617121001259 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 617121001260 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 617121001261 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 617121001262 active site 617121001263 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 617121001264 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 617121001265 oligomer interface [polypeptide binding]; other site 617121001266 active site residues [active] 617121001267 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 617121001268 Protein of unknown function (DUF964); Region: DUF964; cl01483 617121001269 hypothetical protein; Provisional; Region: PRK02302 617121001270 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 617121001271 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 617121001272 putative ligand binding site [chemical binding]; other site 617121001273 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 617121001274 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 617121001275 TM-ABC transporter signature motif; other site 617121001276 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 617121001277 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 617121001278 TM-ABC transporter signature motif; other site 617121001279 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 617121001280 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 617121001281 Walker A/P-loop; other site 617121001282 ATP binding site [chemical binding]; other site 617121001283 Q-loop/lid; other site 617121001284 ABC transporter signature motif; other site 617121001285 Walker B; other site 617121001286 D-loop; other site 617121001287 H-loop/switch region; other site 617121001288 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 617121001289 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 617121001290 Walker A/P-loop; other site 617121001291 ATP binding site [chemical binding]; other site 617121001292 Q-loop/lid; other site 617121001293 ABC transporter signature motif; other site 617121001294 Walker B; other site 617121001295 D-loop; other site 617121001296 H-loop/switch region; other site 617121001297 FOG: CBS domain [General function prediction only]; Region: COG0517 617121001298 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 617121001299 FOG: CBS domain [General function prediction only]; Region: COG0517 617121001300 thymidylate kinase; Validated; Region: tmk; PRK00698 617121001301 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 617121001302 TMP-binding site; other site 617121001303 ATP-binding site [chemical binding]; other site 617121001304 DNA polymerase III subunit delta'; Validated; Region: PRK07276 617121001305 DNA polymerase III subunit delta'; Validated; Region: PRK08485 617121001306 PSP1 C-terminal conserved region; Region: PSP1; cl00770 617121001307 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 617121001308 Predicted methyltransferases [General function prediction only]; Region: COG0313 617121001309 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 617121001310 putative SAM binding site [chemical binding]; other site 617121001311 putative homodimer interface [polypeptide binding]; other site 617121001312 CutC family; Region: CutC; pfam03932 617121001313 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 617121001314 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 617121001315 catalytic residue [active] 617121001316 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 617121001317 Coenzyme A binding pocket [chemical binding]; other site 617121001318 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 617121001319 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 617121001320 DNA binding site [nucleotide binding] 617121001321 active site 617121001322 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 617121001323 ArsC family; Region: ArsC; pfam03960 617121001324 putative ArsC-like catalytic residues; other site 617121001325 putative TRX-like catalytic residues [active] 617121001326 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 617121001327 dimer interface [polypeptide binding]; other site 617121001328 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 617121001329 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 617121001330 Transcriptional regulators [Transcription]; Region: PurR; COG1609 617121001331 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 617121001332 DNA binding site [nucleotide binding] 617121001333 domain linker motif; other site 617121001334 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 617121001335 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 617121001336 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 617121001337 active site 617121001338 motif I; other site 617121001339 motif II; other site 617121001340 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 617121001341 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 617121001342 active site 617121001343 putative catalytic site [active] 617121001344 DNA binding site [nucleotide binding] 617121001345 putative phosphate binding site [ion binding]; other site 617121001346 metal binding site A [ion binding]; metal-binding site 617121001347 AP binding site [nucleotide binding]; other site 617121001348 metal binding site B [ion binding]; metal-binding site 617121001349 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 617121001350 Predicted integral membrane protein [Function unknown]; Region: COG5658 617121001351 SdpI/YhfL protein family; Region: SdpI; pfam13630 617121001352 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 617121001353 L-lactate permease; Region: Lactate_perm; cl00701 617121001354 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 617121001355 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 617121001356 teramer interface [polypeptide binding]; other site 617121001357 active site 617121001358 FMN binding site [chemical binding]; other site 617121001359 catalytic residues [active] 617121001360 cell envelope proteinase A; similar to interleukin-8 protease [Streptococcus pyogenes MGAS10270] 617121001361 Predicted membrane protein [Function unknown]; Region: COG3619 617121001362 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 617121001363 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 617121001364 active site 617121001365 HIGH motif; other site 617121001366 KMSKS motif; other site 617121001367 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 617121001368 tRNA binding surface [nucleotide binding]; other site 617121001369 anticodon binding site; other site 617121001370 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 617121001371 dimer interface [polypeptide binding]; other site 617121001372 putative tRNA-binding site [nucleotide binding]; other site 617121001373 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 617121001374 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 617121001375 dimer interface [polypeptide binding]; other site 617121001376 putative radical transfer pathway; other site 617121001377 diiron center [ion binding]; other site 617121001378 tyrosyl radical; other site 617121001379 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 617121001380 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07187 617121001381 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 617121001382 Class I ribonucleotide reductase; Region: RNR_I; cd01679 617121001383 active site 617121001384 dimer interface [polypeptide binding]; other site 617121001385 catalytic residues [active] 617121001386 effector binding site; other site 617121001387 R2 peptide binding site; other site 617121001388 potential frameshift: common BLAST hit: gi|386316415|ref|YP_006012579.1| branched chain amino acid:H+ symporter 617121001389 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 617121001390 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 617121001391 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 617121001392 classical (c) SDRs; Region: SDR_c; cd05233 617121001393 NAD(P) binding site [chemical binding]; other site 617121001394 active site 617121001395 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 617121001396 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 617121001397 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 617121001398 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 617121001399 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 617121001400 putative substrate translocation pore; other site 617121001401 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 617121001402 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 617121001403 Substrate binding site; other site 617121001404 Mg++ binding site; other site 617121001405 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 617121001406 active site 617121001407 substrate binding site [chemical binding]; other site 617121001408 CoA binding site [chemical binding]; other site 617121001409 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 617121001410 dimer interface [polypeptide binding]; other site 617121001411 ADP-ribose binding site [chemical binding]; other site 617121001412 active site 617121001413 nudix motif; other site 617121001414 metal binding site [ion binding]; metal-binding site 617121001415 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 617121001416 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 617121001417 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 617121001418 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 617121001419 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 617121001420 FeoA domain; Region: FeoA; pfam04023 617121001421 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 617121001422 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 617121001423 metal binding site [ion binding]; metal-binding site 617121001424 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 617121001425 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 617121001426 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 617121001427 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 617121001428 ABC-ATPase subunit interface; other site 617121001429 dimer interface [polypeptide binding]; other site 617121001430 putative PBP binding regions; other site 617121001431 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 617121001432 active site 617121001433 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 617121001434 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 617121001435 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 617121001436 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 617121001437 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 617121001438 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 617121001439 23S rRNA interface [nucleotide binding]; other site 617121001440 L7/L12 interface [polypeptide binding]; other site 617121001441 putative thiostrepton binding site; other site 617121001442 L25 interface [polypeptide binding]; other site 617121001443 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 617121001444 mRNA/rRNA interface [nucleotide binding]; other site 617121001445 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 617121001446 putative nucleotide binding site [chemical binding]; other site 617121001447 uridine monophosphate binding site [chemical binding]; other site 617121001448 homohexameric interface [polypeptide binding]; other site 617121001449 ribosome recycling factor; Reviewed; Region: frr; PRK00083 617121001450 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 617121001451 hinge region; other site 617121001452 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 617121001453 S1 domain; Region: S1_2; pfam13509 617121001454 methionine sulfoxide reductase A; Provisional; Region: PRK14054 617121001455 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 617121001456 Myosin-crossreactive antigen [Function unknown]; Region: COG4716 617121001457 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 617121001458 PhoH-like protein; Region: PhoH; pfam02562 617121001459 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 617121001460 putative uracil binding site [chemical binding]; other site 617121001461 putative active site [active] 617121001462 metal-binding heat shock protein; Provisional; Region: PRK00016 617121001463 GTPase Era; Reviewed; Region: era; PRK00089 617121001464 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 617121001465 G1 box; other site 617121001466 GTP/Mg2+ binding site [chemical binding]; other site 617121001467 Switch I region; other site 617121001468 G2 box; other site 617121001469 Switch II region; other site 617121001470 G3 box; other site 617121001471 G4 box; other site 617121001472 G5 box; other site 617121001473 KH domain; Region: KH_2; pfam07650 617121001474 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 617121001475 nudix motif; other site 617121001476 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 617121001477 similar to IS1191 transposase [Streptococcus thermophilus LMG 18311] 617121001478 CAAX protease self-immunity; Region: Abi; pfam02517 617121001479 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 617121001480 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 617121001481 non-specific DNA binding site [nucleotide binding]; other site 617121001482 salt bridge; other site 617121001483 sequence-specific DNA binding site [nucleotide binding]; other site 617121001484 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 617121001485 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 617121001486 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 617121001487 DNA binding site [nucleotide binding] 617121001488 catalytic residue [active] 617121001489 H2TH interface [polypeptide binding]; other site 617121001490 putative catalytic residues [active] 617121001491 turnover-facilitating residue; other site 617121001492 intercalation triad [nucleotide binding]; other site 617121001493 8OG recognition residue [nucleotide binding]; other site 617121001494 putative reading head residues; other site 617121001495 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 617121001496 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 617121001497 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 617121001498 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 617121001499 CoA-binding site [chemical binding]; other site 617121001500 ATP-binding [chemical binding]; other site 617121001501 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 617121001502 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 617121001503 Walker A/P-loop; other site 617121001504 ATP binding site [chemical binding]; other site 617121001505 Q-loop/lid; other site 617121001506 ABC transporter signature motif; other site 617121001507 Walker B; other site 617121001508 D-loop; other site 617121001509 H-loop/switch region; other site 617121001510 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 617121001511 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 617121001512 Walker A motif; other site 617121001513 ATP binding site [chemical binding]; other site 617121001514 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 617121001515 putative substrate translocation pore; other site 617121001516 Major Facilitator Superfamily; Region: MFS_1; pfam07690 617121001517 ribonuclease R; Region: RNase_R; TIGR02063 617121001518 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 617121001519 RNB domain; Region: RNB; pfam00773 617121001520 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 617121001521 RNA binding site [nucleotide binding]; other site 617121001522 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 617121001523 SmpB-tmRNA interface; other site 617121001524 putative transposase OrfB; Reviewed; Region: PHA02517 617121001525 HTH-like domain; Region: HTH_21; pfam13276 617121001526 Integrase core domain; Region: rve; pfam00665 617121001527 Integrase core domain; Region: rve_2; pfam13333 617121001528 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 617121001529 Transposase; Region: HTH_Tnp_1; cl17663 617121001530 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 617121001531 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 617121001532 Ligand binding site; other site 617121001533 Putative Catalytic site; other site 617121001534 DXD motif; other site 617121001535 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 617121001536 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 617121001537 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 617121001538 dimer interface [polypeptide binding]; other site 617121001539 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 617121001540 active site 617121001541 metal binding site [ion binding]; metal-binding site 617121001542 glutathione binding site [chemical binding]; other site 617121001543 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 617121001544 dimer interface [polypeptide binding]; other site 617121001545 FMN binding site [chemical binding]; other site 617121001546 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 617121001547 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 617121001548 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 617121001549 active site 617121001550 catabolite control protein A; Region: ccpA; TIGR01481 617121001551 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 617121001552 DNA binding site [nucleotide binding] 617121001553 domain linker motif; other site 617121001554 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 617121001555 dimerization interface [polypeptide binding]; other site 617121001556 effector binding site; other site 617121001557 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 617121001558 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 617121001559 active site 617121001560 Na/Ca binding site [ion binding]; other site 617121001561 catalytic site [active] 617121001562 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 617121001563 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 617121001564 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 617121001565 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 617121001566 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 617121001567 putative ADP-binding pocket [chemical binding]; other site 617121001568 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 617121001569 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 617121001570 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 617121001571 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 617121001572 active site 617121001573 dimer interface [polypeptide binding]; other site 617121001574 motif 1; other site 617121001575 motif 2; other site 617121001576 motif 3; other site 617121001577 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 617121001578 anticodon binding site; other site 617121001579 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 617121001580 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121001581 Walker A/P-loop; other site 617121001582 ATP binding site [chemical binding]; other site 617121001583 Q-loop/lid; other site 617121001584 ABC transporter signature motif; other site 617121001585 Walker B; other site 617121001586 D-loop; other site 617121001587 H-loop/switch region; other site 617121001588 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 617121001589 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 617121001590 DhaKLM operon coactivator DhaQ; Provisional; Region: PRK14483 617121001591 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 617121001592 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 617121001593 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 617121001594 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 617121001595 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 617121001596 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 617121001597 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 617121001598 amphipathic channel; other site 617121001599 Asn-Pro-Ala signature motifs; other site 617121001600 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 617121001601 active site 2 [active] 617121001602 active site 1 [active] 617121001603 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 617121001604 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 617121001605 dimer interface [polypeptide binding]; other site 617121001606 active site 617121001607 D-alanine--poly(phosphoribitol) ligase, subunit 1; Region: D-ala-DACP-lig; TIGR01734 617121001608 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 617121001609 AMP binding site [chemical binding]; other site 617121001610 active site 617121001611 acyl-activating enzyme (AAE) consensus motif; other site 617121001612 CoA binding site [chemical binding]; other site 617121001613 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 617121001614 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 617121001615 dimer interface [polypeptide binding]; other site 617121001616 conserved gate region; other site 617121001617 putative PBP binding loops; other site 617121001618 ABC-ATPase subunit interface; other site 617121001619 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 617121001620 dimer interface [polypeptide binding]; other site 617121001621 conserved gate region; other site 617121001622 putative PBP binding loops; other site 617121001623 ABC-ATPase subunit interface; other site 617121001624 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 617121001625 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 617121001626 substrate binding pocket [chemical binding]; other site 617121001627 membrane-bound complex binding site; other site 617121001628 hinge residues; other site 617121001629 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 617121001630 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 617121001631 Walker A/P-loop; other site 617121001632 ATP binding site [chemical binding]; other site 617121001633 Q-loop/lid; other site 617121001634 ABC transporter signature motif; other site 617121001635 Walker B; other site 617121001636 D-loop; other site 617121001637 H-loop/switch region; other site 617121001638 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 617121001639 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 617121001640 active site 617121001641 phosphorylation site [posttranslational modification] 617121001642 intermolecular recognition site; other site 617121001643 dimerization interface [polypeptide binding]; other site 617121001644 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 617121001645 DNA binding site [nucleotide binding] 617121001646 PAS fold; Region: PAS; pfam00989 617121001647 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 617121001648 putative active site [active] 617121001649 heme pocket [chemical binding]; other site 617121001650 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 617121001651 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 617121001652 dimer interface [polypeptide binding]; other site 617121001653 phosphorylation site [posttranslational modification] 617121001654 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 617121001655 Mg2+ binding site [ion binding]; other site 617121001656 G-X-G motif; other site 617121001657 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 617121001658 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 617121001659 ribonuclease III; Reviewed; Region: rnc; PRK00102 617121001660 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 617121001661 dimerization interface [polypeptide binding]; other site 617121001662 active site 617121001663 metal binding site [ion binding]; metal-binding site 617121001664 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 617121001665 dsRNA binding site [nucleotide binding]; other site 617121001666 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 617121001667 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 617121001668 Walker A/P-loop; other site 617121001669 ATP binding site [chemical binding]; other site 617121001670 Q-loop/lid; other site 617121001671 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 617121001672 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 617121001673 ABC transporter signature motif; other site 617121001674 Walker B; other site 617121001675 D-loop; other site 617121001676 H-loop/switch region; other site 617121001677 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 617121001678 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 617121001679 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 617121001680 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121001681 Transposase [DNA replication, recombination, and repair]; Region: COG5433 617121001682 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 617121001683 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 617121001684 active site 617121001685 motif I; other site 617121001686 motif II; other site 617121001687 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 617121001688 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 617121001689 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 617121001690 active site 617121001691 motif I; other site 617121001692 motif II; other site 617121001693 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 617121001694 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 617121001695 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 617121001696 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 617121001697 P loop; other site 617121001698 GTP binding site [chemical binding]; other site 617121001699 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 617121001700 Major Facilitator Superfamily; Region: MFS_1; pfam07690 617121001701 putative substrate translocation pore; other site 617121001702 transcriptional antiterminator BglG; Provisional; Region: PRK09772 617121001703 CAT RNA binding domain; Region: CAT_RBD; pfam03123 617121001704 PRD domain; Region: PRD; pfam00874 617121001705 PRD domain; Region: PRD; pfam00874 617121001706 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 617121001707 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 617121001708 active site turn [active] 617121001709 phosphorylation site [posttranslational modification] 617121001710 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 617121001711 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 617121001712 HPr interaction site; other site 617121001713 glycerol kinase (GK) interaction site [polypeptide binding]; other site 617121001714 active site 617121001715 phosphorylation site [posttranslational modification] 617121001716 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 617121001717 beta-galactosidase; Region: BGL; TIGR03356 617121001718 Predicted membrane protein [Function unknown]; Region: COG3689 617121001719 Predicted permeases [General function prediction only]; Region: COG0701 617121001720 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 617121001721 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 617121001722 nudix motif; other site 617121001723 Uncharacterized conserved protein [Function unknown]; Region: COG3542 617121001724 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 617121001725 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 617121001726 active site 617121001727 phosphorylation site [posttranslational modification] 617121001728 intermolecular recognition site; other site 617121001729 dimerization interface [polypeptide binding]; other site 617121001730 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 617121001731 DNA binding site [nucleotide binding] 617121001732 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 617121001733 dimer interface [polypeptide binding]; other site 617121001734 phosphorylation site [posttranslational modification] 617121001735 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 617121001736 ATP binding site [chemical binding]; other site 617121001737 G-X-G motif; other site 617121001738 PBP superfamily domain; Region: PBP_like_2; cl17296 617121001739 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 617121001740 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 617121001741 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 617121001742 dimer interface [polypeptide binding]; other site 617121001743 conserved gate region; other site 617121001744 putative PBP binding loops; other site 617121001745 ABC-ATPase subunit interface; other site 617121001746 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 617121001747 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 617121001748 dimer interface [polypeptide binding]; other site 617121001749 conserved gate region; other site 617121001750 putative PBP binding loops; other site 617121001751 ABC-ATPase subunit interface; other site 617121001752 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 617121001753 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 617121001754 Walker A/P-loop; other site 617121001755 ATP binding site [chemical binding]; other site 617121001756 Q-loop/lid; other site 617121001757 ABC transporter signature motif; other site 617121001758 Walker B; other site 617121001759 D-loop; other site 617121001760 H-loop/switch region; other site 617121001761 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 617121001762 PhoU domain; Region: PhoU; pfam01895 617121001763 PhoU domain; Region: PhoU; pfam01895 617121001764 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 617121001765 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 617121001766 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 617121001767 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 617121001768 RNA binding site [nucleotide binding]; other site 617121001769 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 617121001770 hypothetical protein; Provisional; Region: PRK04351 617121001771 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 617121001772 HPr kinase/phosphorylase; Provisional; Region: PRK05428 617121001773 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 617121001774 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 617121001775 Hpr binding site; other site 617121001776 active site 617121001777 homohexamer subunit interaction site [polypeptide binding]; other site 617121001778 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 617121001779 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 617121001780 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 617121001781 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 617121001782 Peptidase family U32; Region: Peptidase_U32; pfam01136 617121001783 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 617121001784 Peptidase family U32; Region: Peptidase_U32; pfam01136 617121001785 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 617121001786 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 617121001787 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 617121001788 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 617121001789 dimer interface [polypeptide binding]; other site 617121001790 putative anticodon binding site; other site 617121001791 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 617121001792 motif 1; other site 617121001793 active site 617121001794 motif 2; other site 617121001795 motif 3; other site 617121001796 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 617121001797 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 617121001798 motif II; other site 617121001799 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 617121001800 catalytic core [active] 617121001801 hypothetical protein; Provisional; Region: PRK11770 617121001802 Domain of unknown function (DUF307); Region: DUF307; pfam03733 617121001803 Domain of unknown function (DUF307); Region: DUF307; pfam03733 617121001804 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 617121001805 putative deacylase active site [active] 617121001806 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; cl17491 617121001807 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 617121001808 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121001809 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 617121001810 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 617121001811 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 617121001812 active site 617121001813 potential frameshift: common BLAST hit: gi|386316989|ref|YP_006013153.1| transposase IS116/IS110/IS902 family protein 617121001814 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 617121001815 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 617121001816 Transposase; Region: DEDD_Tnp_IS110; pfam01548 617121001817 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 617121001818 catalytic residues [active] 617121001819 dimer interface [polypeptide binding]; other site 617121001820 oligoendopeptidase F; Region: pepF; TIGR00181 617121001821 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 617121001822 Zn binding site [ion binding]; other site 617121001823 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 617121001824 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 617121001825 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 617121001826 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 617121001827 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 617121001828 DNA binding residues [nucleotide binding] 617121001829 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 617121001830 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 617121001831 elongation factor Tu; Reviewed; Region: PRK00049 617121001832 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 617121001833 G1 box; other site 617121001834 GEF interaction site [polypeptide binding]; other site 617121001835 GTP/Mg2+ binding site [chemical binding]; other site 617121001836 Switch I region; other site 617121001837 G2 box; other site 617121001838 G3 box; other site 617121001839 Switch II region; other site 617121001840 G4 box; other site 617121001841 G5 box; other site 617121001842 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 617121001843 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 617121001844 Antibiotic Binding Site [chemical binding]; other site 617121001845 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 617121001846 potential frameshift: common BLAST hit: gi|386317137|ref|YP_006013301.1| transposase 617121001847 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121001848 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 617121001849 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 617121001850 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 617121001851 DXD motif; other site 617121001852 triosephosphate isomerase; Provisional; Region: PRK14567 617121001853 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 617121001854 substrate binding site [chemical binding]; other site 617121001855 dimer interface [polypeptide binding]; other site 617121001856 catalytic triad [active] 617121001857 putative transposase OrfB; Reviewed; Region: PHA02517 617121001858 HTH-like domain; Region: HTH_21; pfam13276 617121001859 Integrase core domain; Region: rve; pfam00665 617121001860 Integrase core domain; Region: rve_2; pfam13333 617121001861 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 617121001862 Transposase; Region: HTH_Tnp_1; cl17663 617121001863 HTH-like domain; Region: HTH_21; pfam13276 617121001864 Integrase core domain; Region: rve; pfam00665 617121001865 Integrase core domain; Region: rve_3; pfam13683 617121001866 Transposase; Region: HTH_Tnp_1; pfam01527 617121001867 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 617121001868 FemAB family; Region: FemAB; pfam02388 617121001869 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 617121001870 FemAB family; Region: FemAB; pfam02388 617121001871 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 617121001872 sugar phosphate phosphatase; Provisional; Region: PRK10513 617121001873 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 617121001874 motif II; other site 617121001875 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 617121001876 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 617121001877 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 617121001878 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 617121001879 Zn2+ binding site [ion binding]; other site 617121001880 Mg2+ binding site [ion binding]; other site 617121001881 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 617121001882 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 617121001883 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 617121001884 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 617121001885 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 617121001886 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 617121001887 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 617121001888 Transcriptional regulators [Transcription]; Region: PurR; COG1609 617121001889 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 617121001890 DNA binding site [nucleotide binding] 617121001891 domain linker motif; other site 617121001892 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 617121001893 putative dimerization interface [polypeptide binding]; other site 617121001894 putative ligand binding site [chemical binding]; other site 617121001895 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 617121001896 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 617121001897 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 617121001898 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 617121001899 active site 617121001900 phosphorylation site [posttranslational modification] 617121001901 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 617121001902 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 617121001903 active pocket/dimerization site; other site 617121001904 active site 617121001905 phosphorylation site [posttranslational modification] 617121001906 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 617121001907 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 617121001908 NADP binding site [chemical binding]; other site 617121001909 homodimer interface [polypeptide binding]; other site 617121001910 active site 617121001911 hypothetical protein; Provisional; Region: PRK09273 617121001912 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 617121001913 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 617121001914 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 617121001915 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 617121001916 substrate binding site [chemical binding]; other site 617121001917 ATP binding site [chemical binding]; other site 617121001918 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 617121001919 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 617121001920 active site 617121001921 intersubunit interface [polypeptide binding]; other site 617121001922 catalytic residue [active] 617121001923 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 617121001924 substrate binding site [chemical binding]; other site 617121001925 catalytic residues [active] 617121001926 putative phosphoesterase; Region: acc_ester; TIGR03729 617121001927 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 617121001928 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 617121001929 active site 617121001930 metal binding site [ion binding]; metal-binding site 617121001931 putative transposase OrfB; Reviewed; Region: PHA02517 617121001932 HTH-like domain; Region: HTH_21; pfam13276 617121001933 Integrase core domain; Region: rve; pfam00665 617121001934 Integrase core domain; Region: rve_3; cl15866 617121001935 Transposase; Region: HTH_Tnp_1; pfam01527 617121001936 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 617121001937 Transposase; Region: HTH_Tnp_1; pfam01527 617121001938 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 617121001939 putative transposase OrfB; Reviewed; Region: PHA02517 617121001940 HTH-like domain; Region: HTH_21; pfam13276 617121001941 Integrase core domain; Region: rve; pfam00665 617121001942 Integrase core domain; Region: rve_3; pfam13683 617121001943 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 617121001944 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 617121001945 motif II; other site 617121001946 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 617121001947 epoxyqueuosine reductase; Region: TIGR00276 617121001948 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 617121001949 peptide chain release factor 2; Validated; Region: prfB; PRK00578 617121001950 PCRF domain; Region: PCRF; pfam03462 617121001951 RF-1 domain; Region: RF-1; pfam00472 617121001952 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 617121001953 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121001954 Walker A/P-loop; other site 617121001955 ATP binding site [chemical binding]; other site 617121001956 Q-loop/lid; other site 617121001957 ABC transporter signature motif; other site 617121001958 Walker B; other site 617121001959 D-loop; other site 617121001960 H-loop/switch region; other site 617121001961 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 617121001962 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 617121001963 FtsX-like permease family; Region: FtsX; pfam02687 617121001964 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 617121001965 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 617121001966 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 617121001967 active site 617121001968 catalytic site [active] 617121001969 substrate binding site [chemical binding]; other site 617121001970 DEAD/DEAH box helicase; Region: DEAD; pfam00270 617121001971 ATP binding site [chemical binding]; other site 617121001972 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 617121001973 aspartate aminotransferase; Provisional; Region: PRK05764 617121001974 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 617121001975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 617121001976 homodimer interface [polypeptide binding]; other site 617121001977 catalytic residue [active] 617121001978 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 617121001979 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 617121001980 putative dimer interface [polypeptide binding]; other site 617121001981 putative anticodon binding site; other site 617121001982 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 617121001983 homodimer interface [polypeptide binding]; other site 617121001984 motif 1; other site 617121001985 motif 2; other site 617121001986 active site 617121001987 motif 3; other site 617121001988 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 617121001989 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 617121001990 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 617121001991 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 617121001992 dimer interface [polypeptide binding]; other site 617121001993 phosphate binding site [ion binding]; other site 617121001994 similar to hypothetical cytosolic protein [Streptococcus pyogenes MGAS5005] 617121001995 Peptidase family C69; Region: Peptidase_C69; pfam03577 617121001996 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 617121001997 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 617121001998 metal binding site [ion binding]; metal-binding site 617121001999 YodA lipocalin-like domain; Region: YodA; pfam09223 617121002000 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 617121002001 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 617121002002 DNA-binding site [nucleotide binding]; DNA binding site 617121002003 UTRA domain; Region: UTRA; pfam07702 617121002004 similar to putative tagatose-6-phosphatealdose/ketose isomerase [Streptococcus pyogenes str. Manfredo] 617121002005 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 617121002006 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 617121002007 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 617121002008 DNA-binding site [nucleotide binding]; DNA binding site 617121002009 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 617121002010 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 617121002011 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 617121002012 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 617121002013 active site 617121002014 phosphorylation site [posttranslational modification] 617121002015 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 617121002016 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 617121002017 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 617121002018 active pocket/dimerization site; other site 617121002019 active site 617121002020 phosphorylation site [posttranslational modification] 617121002021 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 617121002022 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 617121002023 Integrase core domain; Region: rve; pfam00665 617121002024 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 617121002025 DHH family; Region: DHH; pfam01368 617121002026 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 617121002027 putative S-transferase; Provisional; Region: PRK11752 617121002028 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 617121002029 C-terminal domain interface [polypeptide binding]; other site 617121002030 GSH binding site (G-site) [chemical binding]; other site 617121002031 dimer interface [polypeptide binding]; other site 617121002032 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 617121002033 N-terminal domain interface [polypeptide binding]; other site 617121002034 dimer interface [polypeptide binding]; other site 617121002035 substrate binding pocket (H-site) [chemical binding]; other site 617121002036 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 617121002037 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 617121002038 active site 617121002039 flavodoxin; Validated; Region: PRK07308 617121002040 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 617121002041 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 617121002042 Cl- selectivity filter; other site 617121002043 Cl- binding residues [ion binding]; other site 617121002044 pore gating glutamate residue; other site 617121002045 dimer interface [polypeptide binding]; other site 617121002046 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 617121002047 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 617121002048 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 617121002049 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 617121002050 motif II; other site 617121002051 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 617121002052 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 617121002053 Mg2+ binding site [ion binding]; other site 617121002054 G-X-G motif; other site 617121002055 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 617121002056 anchoring element; other site 617121002057 dimer interface [polypeptide binding]; other site 617121002058 ATP binding site [chemical binding]; other site 617121002059 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 617121002060 active site 617121002061 putative metal-binding site [ion binding]; other site 617121002062 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 617121002063 septation ring formation regulator EzrA; Provisional; Region: PRK04778 617121002064 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 617121002065 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 617121002066 motif II; other site 617121002067 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 617121002068 enolase; Provisional; Region: eno; PRK00077 617121002069 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 617121002070 dimer interface [polypeptide binding]; other site 617121002071 metal binding site [ion binding]; metal-binding site 617121002072 substrate binding pocket [chemical binding]; other site 617121002073 bacteriocin protoxin, streptolysin S family; Region: streptolysinS; TIGR03602 617121002074 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 617121002075 putative FMN binding site [chemical binding]; other site 617121002076 NADPH bind site [chemical binding]; other site 617121002077 thiazole/oxazole-forming peptide maturase, SagC family component; Region: cyclo_dehy_ocin; TIGR03603 617121002078 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 617121002079 YcaO-like family; Region: YcaO; pfam02624 617121002080 CAAX protease self-immunity; Region: Abi; pfam02517 617121002081 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 617121002082 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121002083 Walker A/P-loop; other site 617121002084 ATP binding site [chemical binding]; other site 617121002085 Q-loop/lid; other site 617121002086 ABC transporter signature motif; other site 617121002087 Walker B; other site 617121002088 D-loop; other site 617121002089 H-loop/switch region; other site 617121002090 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 617121002091 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 617121002092 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 617121002093 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 617121002094 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 617121002095 generic binding surface II; other site 617121002096 generic binding surface I; other site 617121002097 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 617121002098 generic binding surface II; other site 617121002099 generic binding surface I; other site 617121002100 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 617121002101 putative catalytic site [active] 617121002102 putative metal binding site [ion binding]; other site 617121002103 putative phosphate binding site [ion binding]; other site 617121002104 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 617121002105 Predicted membrane protein [Function unknown]; Region: COG4708 617121002106 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 617121002107 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 617121002108 nucleotide binding pocket [chemical binding]; other site 617121002109 K-X-D-G motif; other site 617121002110 catalytic site [active] 617121002111 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 617121002112 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 617121002113 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 617121002114 Dimer interface [polypeptide binding]; other site 617121002115 BRCT sequence motif; other site 617121002116 putative lipid kinase; Reviewed; Region: PRK13055 617121002117 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 617121002118 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 617121002119 carbohydrate binding site [chemical binding]; other site 617121002120 pullulanase, type I; Region: pulA_typeI; TIGR02104 617121002121 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 617121002122 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 617121002123 Ca binding site [ion binding]; other site 617121002124 active site 617121002125 catalytic site [active] 617121002126 glycogen branching enzyme; Provisional; Region: PRK12313 617121002127 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 617121002128 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 617121002129 active site 617121002130 catalytic site [active] 617121002131 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 617121002132 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 617121002133 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 617121002134 ligand binding site; other site 617121002135 oligomer interface; other site 617121002136 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 617121002137 dimer interface [polypeptide binding]; other site 617121002138 N-terminal domain interface [polypeptide binding]; other site 617121002139 similar to putative glycogen biosynthesis protein GlgD [Streptococcus mutans UA159] 617121002140 glycogen synthase; Provisional; Region: glgA; PRK00654 617121002141 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 617121002142 ADP-binding pocket [chemical binding]; other site 617121002143 homodimer interface [polypeptide binding]; other site 617121002144 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 617121002145 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 617121002146 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 617121002147 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 617121002148 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 617121002149 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 617121002150 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 617121002151 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 617121002152 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 617121002153 beta subunit interaction interface [polypeptide binding]; other site 617121002154 Walker A motif; other site 617121002155 ATP binding site [chemical binding]; other site 617121002156 Walker B motif; other site 617121002157 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 617121002158 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 617121002159 core domain interface [polypeptide binding]; other site 617121002160 delta subunit interface [polypeptide binding]; other site 617121002161 epsilon subunit interface [polypeptide binding]; other site 617121002162 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 617121002163 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 617121002164 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 617121002165 alpha subunit interaction interface [polypeptide binding]; other site 617121002166 Walker A motif; other site 617121002167 ATP binding site [chemical binding]; other site 617121002168 Walker B motif; other site 617121002169 inhibitor binding site; inhibition site 617121002170 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 617121002171 ATP synthase CF1 epsilon subunit; Region: atpE; CHL00063 617121002172 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 617121002173 gamma subunit interface [polypeptide binding]; other site 617121002174 epsilon subunit interface [polypeptide binding]; other site 617121002175 LBP interface [polypeptide binding]; other site 617121002176 conserved hypothetical integral membrane protein; Region: int_mem_ywzB; TIGR02327 617121002177 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 617121002178 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 617121002179 hinge; other site 617121002180 active site 617121002181 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 617121002182 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 617121002183 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 617121002184 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 617121002185 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 617121002186 dimer interface [polypeptide binding]; other site 617121002187 motif 1; other site 617121002188 active site 617121002189 motif 2; other site 617121002190 motif 3; other site 617121002191 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 617121002192 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 617121002193 putative tRNA-binding site [nucleotide binding]; other site 617121002194 B3/4 domain; Region: B3_4; pfam03483 617121002195 tRNA synthetase B5 domain; Region: B5; smart00874 617121002196 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 617121002197 dimer interface [polypeptide binding]; other site 617121002198 motif 1; other site 617121002199 motif 3; other site 617121002200 motif 2; other site 617121002201 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 617121002202 OsmC-like protein; Region: OsmC; cl00767 617121002203 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 617121002204 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 617121002205 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 617121002206 FtsX-like permease family; Region: FtsX; pfam02687 617121002207 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 617121002208 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 617121002209 Walker A/P-loop; other site 617121002210 ATP binding site [chemical binding]; other site 617121002211 Q-loop/lid; other site 617121002212 ABC transporter signature motif; other site 617121002213 Walker B; other site 617121002214 D-loop; other site 617121002215 H-loop/switch region; other site 617121002216 Predicted metalloprotease [General function prediction only]; Region: COG2321 617121002217 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 617121002218 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 617121002219 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 617121002220 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 617121002221 Part of AAA domain; Region: AAA_19; pfam13245 617121002222 Family description; Region: UvrD_C_2; pfam13538 617121002223 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 617121002224 transaminase; Validated; Region: PRK07324 617121002225 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 617121002226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 617121002227 homodimer interface [polypeptide binding]; other site 617121002228 catalytic residue [active] 617121002229 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 617121002230 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 617121002231 substrate binding pocket [chemical binding]; other site 617121002232 membrane-bound complex binding site; other site 617121002233 hinge residues; other site 617121002234 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 617121002235 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 617121002236 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 617121002237 DNA primase; Validated; Region: dnaG; PRK05667 617121002238 CHC2 zinc finger; Region: zf-CHC2; pfam01807 617121002239 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 617121002240 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 617121002241 active site 617121002242 metal binding site [ion binding]; metal-binding site 617121002243 interdomain interaction site; other site 617121002244 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 617121002245 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 617121002246 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 617121002247 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 617121002248 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 617121002249 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 617121002250 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 617121002251 DNA binding residues [nucleotide binding] 617121002252 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 617121002253 similar to dTDP-4-dehydrorhamnose reductase [Streptococcus pyogenes MGAS6180] 617121002254 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 617121002255 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 617121002256 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 617121002257 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 617121002258 Probable Catalytic site; other site 617121002259 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 617121002260 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 617121002261 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 617121002262 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 617121002263 Walker A/P-loop; other site 617121002264 ATP binding site [chemical binding]; other site 617121002265 Q-loop/lid; other site 617121002266 ABC transporter signature motif; other site 617121002267 Walker B; other site 617121002268 D-loop; other site 617121002269 H-loop/switch region; other site 617121002270 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 617121002271 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 617121002272 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 617121002273 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 617121002274 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 617121002275 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 617121002276 active site 617121002277 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 617121002278 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 617121002279 Ligand binding site; other site 617121002280 Putative Catalytic site; other site 617121002281 DXD motif; other site 617121002282 Uncharacterized conserved protein (DUF2304); Region: DUF2304; pfam10066 617121002283 Sulfatase; Region: Sulfatase; pfam00884 617121002284 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 617121002285 UDP-glucose 4-epimerase; Region: PLN02240 617121002286 NAD binding site [chemical binding]; other site 617121002287 homodimer interface [polypeptide binding]; other site 617121002288 active site 617121002289 substrate binding site [chemical binding]; other site 617121002290 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 617121002291 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 617121002292 peptidase T; Region: peptidase-T; TIGR01882 617121002293 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 617121002294 metal binding site [ion binding]; metal-binding site 617121002295 dimer interface [polypeptide binding]; other site 617121002296 cytidylate kinase; Provisional; Region: cmk; PRK00023 617121002297 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 617121002298 CMP-binding site; other site 617121002299 The sites determining sugar specificity; other site 617121002300 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 617121002301 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 617121002302 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 617121002303 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 617121002304 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 617121002305 23S rRNA binding site [nucleotide binding]; other site 617121002306 L21 binding site [polypeptide binding]; other site 617121002307 L13 binding site [polypeptide binding]; other site 617121002308 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 617121002309 Sulfatase; Region: Sulfatase; pfam00884 617121002310 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 617121002311 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 617121002312 putative RNA binding site [nucleotide binding]; other site 617121002313 Methyltransferase domain; Region: Methyltransf_26; pfam13659 617121002314 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 617121002315 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 617121002316 active site 617121002317 catalytic residue [active] 617121002318 dimer interface [polypeptide binding]; other site 617121002319 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 617121002320 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 617121002321 Tetramer interface [polypeptide binding]; other site 617121002322 active site 617121002323 FMN-binding site [chemical binding]; other site 617121002324 hypothetical protein; Provisional; Region: PRK13676 617121002325 glutathione reductase; Validated; Region: PRK06116 617121002326 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 617121002327 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 617121002328 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 617121002329 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 617121002330 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 617121002331 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 617121002332 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 617121002333 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 617121002334 catalytic residue [active] 617121002335 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 617121002336 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 617121002337 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 617121002338 Ligand Binding Site [chemical binding]; other site 617121002339 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 617121002340 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 617121002341 putative active site [active] 617121002342 putative metal binding site [ion binding]; other site 617121002343 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 617121002344 Helix-turn-helix domain; Region: HTH_38; pfam13936 617121002345 Integrase core domain; Region: rve; pfam00665 617121002346 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 617121002347 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 617121002348 Transcriptional regulator [Transcription]; Region: LysR; COG0583 617121002349 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 617121002350 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 617121002351 dimerization interface [polypeptide binding]; other site 617121002352 lipoprotein signal peptidase; Provisional; Region: PRK14797 617121002353 lipoprotein signal peptidase; Provisional; Region: PRK14787 617121002354 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 617121002355 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 617121002356 RNA binding surface [nucleotide binding]; other site 617121002357 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 617121002358 active site 617121002359 Uncharacterized conserved protein [Function unknown]; Region: COG0398 617121002360 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 617121002361 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 617121002362 active site 617121002363 uracil transporter; Provisional; Region: PRK10720 617121002364 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 617121002365 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 617121002366 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 617121002367 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 617121002368 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 617121002369 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 617121002370 catalytic site [active] 617121002371 subunit interface [polypeptide binding]; other site 617121002372 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 617121002373 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 617121002374 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 617121002375 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 617121002376 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 617121002377 ATP-grasp domain; Region: ATP-grasp_4; cl17255 617121002378 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 617121002379 IMP binding site; other site 617121002380 dimer interface [polypeptide binding]; other site 617121002381 interdomain contacts; other site 617121002382 partial ornithine binding site; other site 617121002383 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 617121002384 HlyD family secretion protein; Region: HlyD_3; pfam13437 617121002385 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 617121002386 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 617121002387 Walker A/P-loop; other site 617121002388 ATP binding site [chemical binding]; other site 617121002389 Q-loop/lid; other site 617121002390 ABC transporter signature motif; other site 617121002391 Walker B; other site 617121002392 D-loop; other site 617121002393 H-loop/switch region; other site 617121002394 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 617121002395 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 617121002396 FtsX-like permease family; Region: FtsX; pfam02687 617121002397 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 617121002398 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 617121002399 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 617121002400 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 617121002401 putative active site [active] 617121002402 catalytic site [active] 617121002403 putative metal binding site [ion binding]; other site 617121002404 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 617121002405 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 617121002406 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 617121002407 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]; Region: COG3576 617121002408 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 617121002409 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 617121002410 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 617121002411 RimM N-terminal domain; Region: RimM; pfam01782 617121002412 PRC-barrel domain; Region: PRC; pfam05239 617121002413 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 617121002414 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 617121002415 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 617121002416 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 617121002417 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 617121002418 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 617121002419 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 617121002420 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 617121002421 similar to fruR encoding fructose operon transcriptional repressor [Streptococcus sanguinis SK36] 617121002422 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 617121002423 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 617121002424 putative substrate binding site [chemical binding]; other site 617121002425 putative ATP binding site [chemical binding]; other site 617121002426 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 617121002427 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 617121002428 active site 617121002429 phosphorylation site [posttranslational modification] 617121002430 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 617121002431 active site 617121002432 P-loop; other site 617121002433 phosphorylation site [posttranslational modification] 617121002434 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 617121002435 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 617121002436 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 617121002437 Protein of unknown function (DUF1149); Region: DUF1149; pfam06619 617121002438 EDD domain protein, DegV family; Region: DegV; TIGR00762 617121002439 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 617121002440 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 617121002441 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 617121002442 active site 617121002443 NTP binding site [chemical binding]; other site 617121002444 metal binding triad [ion binding]; metal-binding site 617121002445 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 617121002446 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 617121002447 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 617121002448 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121002449 Walker A/P-loop; other site 617121002450 ATP binding site [chemical binding]; other site 617121002451 Q-loop/lid; other site 617121002452 ABC transporter signature motif; other site 617121002453 Walker B; other site 617121002454 D-loop; other site 617121002455 H-loop/switch region; other site 617121002456 ABC transporter; Region: ABC_tran_2; pfam12848 617121002457 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 617121002458 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121002459 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121002460 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121002461 Walker A/P-loop; other site 617121002462 ATP binding site [chemical binding]; other site 617121002463 Q-loop/lid; other site 617121002464 ABC transporter signature motif; other site 617121002465 Walker B; other site 617121002466 D-loop; other site 617121002467 H-loop/switch region; other site 617121002468 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121002469 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121002470 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 617121002471 Walker A/P-loop; other site 617121002472 ATP binding site [chemical binding]; other site 617121002473 Q-loop/lid; other site 617121002474 ABC transporter signature motif; other site 617121002475 Walker B; other site 617121002476 D-loop; other site 617121002477 H-loop/switch region; other site 617121002478 glutamate dehydrogenase; Provisional; Region: PRK09414 617121002479 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 617121002480 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 617121002481 NAD(P) binding site [chemical binding]; other site 617121002482 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 617121002483 active site 617121002484 catalytic residues [active] 617121002485 metal binding site [ion binding]; metal-binding site 617121002486 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 617121002487 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 617121002488 putative active site [active] 617121002489 putative metal binding site [ion binding]; other site 617121002490 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 617121002491 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 617121002492 synthetase active site [active] 617121002493 NTP binding site [chemical binding]; other site 617121002494 metal binding site [ion binding]; metal-binding site 617121002495 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 617121002496 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 617121002497 active site 617121002498 phosphorylation site [posttranslational modification] 617121002499 intermolecular recognition site; other site 617121002500 dimerization interface [polypeptide binding]; other site 617121002501 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 617121002502 DNA binding site [nucleotide binding] 617121002503 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 617121002504 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 617121002505 dimer interface [polypeptide binding]; other site 617121002506 phosphorylation site [posttranslational modification] 617121002507 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 617121002508 ATP binding site [chemical binding]; other site 617121002509 Mg2+ binding site [ion binding]; other site 617121002510 G-X-G motif; other site 617121002511 mevalonate kinase; Region: mevalon_kin; TIGR00549 617121002512 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 617121002513 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 617121002514 diphosphomevalonate decarboxylase; Region: PLN02407 617121002515 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 617121002516 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 617121002517 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 617121002518 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 617121002519 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 617121002520 homotetramer interface [polypeptide binding]; other site 617121002521 FMN binding site [chemical binding]; other site 617121002522 homodimer contacts [polypeptide binding]; other site 617121002523 putative active site [active] 617121002524 putative substrate binding site [chemical binding]; other site 617121002525 Mga helix-turn-helix domain; Region: Mga; pfam05043 617121002526 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 617121002527 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 617121002528 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 617121002529 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 617121002530 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 617121002531 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 617121002532 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 617121002533 Mga helix-turn-helix domain; Region: Mga; pfam05043 617121002534 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 617121002535 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 617121002536 homodimer interface [polypeptide binding]; other site 617121002537 catalytic residues [active] 617121002538 NAD binding site [chemical binding]; other site 617121002539 substrate binding pocket [chemical binding]; other site 617121002540 flexible flap; other site 617121002541 "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 617121002542 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 617121002543 dimer interface [polypeptide binding]; other site 617121002544 active site 617121002545 thymidylate synthase; Reviewed; Region: thyA; PRK01827 617121002546 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 617121002547 dimerization interface [polypeptide binding]; other site 617121002548 active site 617121002549 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 617121002550 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 617121002551 folate binding site [chemical binding]; other site 617121002552 NADP+ binding site [chemical binding]; other site 617121002553 similar to ATP-dependent protease ATP-binding subunit [Streptococcus pyogenes MGAS10394]; truncated ATP-dependent protease ATP-binding subunit 617121002554 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 617121002555 G1 box; other site 617121002556 GTP/Mg2+ binding site [chemical binding]; other site 617121002557 Switch I region; other site 617121002558 G2 box; other site 617121002559 G3 box; other site 617121002560 Switch II region; other site 617121002561 G4 box; other site 617121002562 G5 box; other site 617121002563 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 617121002564 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 617121002565 Walker A motif; other site 617121002566 ATP binding site [chemical binding]; other site 617121002567 Walker B motif; other site 617121002568 arginine finger; other site 617121002569 UvrB/uvrC motif; Region: UVR; pfam02151 617121002570 MoxR-like ATPases [General function prediction only]; Region: COG0714 617121002571 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 617121002572 Walker A motif; other site 617121002573 ATP binding site [chemical binding]; other site 617121002574 Walker B motif; other site 617121002575 arginine finger; other site 617121002576 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 617121002577 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 617121002578 23S rRNA interface [nucleotide binding]; other site 617121002579 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 617121002580 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 617121002581 core dimer interface [polypeptide binding]; other site 617121002582 L10 interface [polypeptide binding]; other site 617121002583 L11 interface [polypeptide binding]; other site 617121002584 putative EF-Tu interaction site [polypeptide binding]; other site 617121002585 putative EF-G interaction site [polypeptide binding]; other site 617121002586 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121002587 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 617121002588 putative transposase OrfB; Reviewed; Region: PHA02517 617121002589 HTH-like domain; Region: HTH_21; pfam13276 617121002590 Integrase core domain; Region: rve; pfam00665 617121002591 Lantibiotic streptin immunity protein; Region: Streptin-Immun; pfam11083 617121002592 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 617121002593 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 617121002594 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 617121002595 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 617121002596 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 617121002597 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 617121002598 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 617121002599 putative substrate binding site [chemical binding]; other site 617121002600 putative ATP binding site [chemical binding]; other site 617121002601 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 617121002602 CAT RNA binding domain; Region: CAT_RBD; smart01061 617121002603 transcriptional antiterminator BglG; Provisional; Region: PRK09772 617121002604 PRD domain; Region: PRD; pfam00874 617121002605 PRD domain; Region: PRD; pfam00874 617121002606 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 617121002607 methionine cluster; other site 617121002608 active site 617121002609 phosphorylation site [posttranslational modification] 617121002610 metal binding site [ion binding]; metal-binding site 617121002611 phosphotransferase system, lactose specific, IIC component; Region: lac_pts_IIC; TIGR00394 617121002612 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 617121002613 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 617121002614 active site 617121002615 P-loop; other site 617121002616 phosphorylation site [posttranslational modification] 617121002617 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 617121002618 beta-galactosidase; Region: BGL; TIGR03356 617121002619 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 617121002620 active site 617121002621 catalytic residues [active] 617121002622 potential frameshift: common BLAST hit: gi|374338078|ref|YP_005094788.1| phage integrase family site-specific recombinase 617121002623 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 617121002624 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 617121002625 DNA binding site [nucleotide binding] 617121002626 active site 617121002627 Int/Topo IB signature motif; other site 617121002628 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 617121002629 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 617121002630 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 617121002631 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 617121002632 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 617121002633 putative active site [active] 617121002634 putative metal binding site [ion binding]; other site 617121002635 homoserine dehydrogenase; Provisional; Region: PRK06349 617121002636 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 617121002637 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 617121002638 homoserine kinase; Provisional; Region: PRK01212 617121002639 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 617121002640 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 617121002641 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 617121002642 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 617121002643 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 617121002644 homodecamer interface [polypeptide binding]; other site 617121002645 GTP cyclohydrolase I; Provisional; Region: PLN03044 617121002646 active site 617121002647 putative catalytic site residues [active] 617121002648 zinc binding site [ion binding]; other site 617121002649 GTP-CH-I/GFRP interaction surface; other site 617121002650 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 617121002651 dihydropteroate synthase; Region: DHPS; TIGR01496 617121002652 substrate binding pocket [chemical binding]; other site 617121002653 dimer interface [polypeptide binding]; other site 617121002654 inhibitor binding site; inhibition site 617121002655 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 617121002656 homooctamer interface [polypeptide binding]; other site 617121002657 active site 617121002658 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 617121002659 catalytic center binding site [active] 617121002660 ATP binding site [chemical binding]; other site 617121002661 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 617121002662 FAD binding domain; Region: FAD_binding_4; pfam01565 617121002663 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 617121002664 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 617121002665 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 617121002666 Walker A/P-loop; other site 617121002667 ATP binding site [chemical binding]; other site 617121002668 Q-loop/lid; other site 617121002669 ABC transporter signature motif; other site 617121002670 Walker B; other site 617121002671 D-loop; other site 617121002672 H-loop/switch region; other site 617121002673 TOBE domain; Region: TOBE_2; pfam08402 617121002674 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 617121002675 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 617121002676 dimer interface [polypeptide binding]; other site 617121002677 conserved gate region; other site 617121002678 putative PBP binding loops; other site 617121002679 ABC-ATPase subunit interface; other site 617121002680 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 617121002681 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 617121002682 dimer interface [polypeptide binding]; other site 617121002683 conserved gate region; other site 617121002684 putative PBP binding loops; other site 617121002685 ABC-ATPase subunit interface; other site 617121002686 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 617121002687 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 617121002688 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 617121002689 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 617121002690 active site 617121002691 phosphorylation site [posttranslational modification] 617121002692 intermolecular recognition site; other site 617121002693 dimerization interface [polypeptide binding]; other site 617121002694 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 617121002695 Na+/citrate symporter [Energy production and conversion]; Region: CitS; COG3493 617121002696 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 617121002697 Malic enzyme, N-terminal domain; Region: malic; pfam00390 617121002698 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 617121002699 putative NAD(P) binding site [chemical binding]; other site 617121002700 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 617121002701 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 617121002702 Cl- selectivity filter; other site 617121002703 Cl- binding residues [ion binding]; other site 617121002704 pore gating glutamate residue; other site 617121002705 dimer interface [polypeptide binding]; other site 617121002706 H+/Cl- coupling transport residue; other site 617121002707 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 617121002708 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 617121002709 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 617121002710 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 617121002711 active site 617121002712 catalytic triad [active] 617121002713 oxyanion hole [active] 617121002714 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 617121002715 Domain of unknown function DUF20; Region: UPF0118; pfam01594 617121002716 hypothetical protein; Reviewed; Region: PRK00024 617121002717 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 617121002718 MPN+ (JAMM) motif; other site 617121002719 Zinc-binding site [ion binding]; other site 617121002720 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 617121002721 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 617121002722 catalytic triad [active] 617121002723 AT-rich DNA-binding protein [General function prediction only]; Region: COG2344 617121002724 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 617121002725 CoA binding domain; Region: CoA_binding; pfam02629 617121002726 Putative amino acid metabolism; Region: DUF1831; pfam08866 617121002727 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 617121002728 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 617121002729 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 617121002730 catalytic residue [active] 617121002731 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 617121002732 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 617121002733 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 617121002734 active site 617121002735 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 617121002736 putative active site [active] 617121002737 putative metal binding residues [ion binding]; other site 617121002738 signature motif; other site 617121002739 putative triphosphate binding site [ion binding]; other site 617121002740 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 617121002741 synthetase active site [active] 617121002742 NTP binding site [chemical binding]; other site 617121002743 metal binding site [ion binding]; metal-binding site 617121002744 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 617121002745 ATP-NAD kinase; Region: NAD_kinase; pfam01513 617121002746 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 617121002747 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 617121002748 RNA binding surface [nucleotide binding]; other site 617121002749 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 617121002750 active site 617121002751 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 617121002752 malonic semialdehyde reductase; Provisional; Region: PRK10538 617121002753 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 617121002754 putative NAD(P) binding site [chemical binding]; other site 617121002755 homotetramer interface [polypeptide binding]; other site 617121002756 homodimer interface [polypeptide binding]; other site 617121002757 active site 617121002758 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 617121002759 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121002760 Walker A/P-loop; other site 617121002761 ATP binding site [chemical binding]; other site 617121002762 Q-loop/lid; other site 617121002763 ABC transporter signature motif; other site 617121002764 Walker B; other site 617121002765 D-loop; other site 617121002766 H-loop/switch region; other site 617121002767 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 617121002768 dimer interface [polypeptide binding]; other site 617121002769 conserved gate region; other site 617121002770 ABC-ATPase subunit interface; other site 617121002771 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 617121002772 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 617121002773 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 617121002774 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 617121002775 active site 617121002776 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 617121002777 active site 617121002778 xanthine permease; Region: pbuX; TIGR03173 617121002779 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 617121002780 ApbE family; Region: ApbE; pfam02424 617121002781 thymidine kinase; Provisional; Region: PRK04296 617121002782 peptide chain release factor 1; Validated; Region: prfA; PRK00591 617121002783 This domain is found in peptide chain release factors; Region: PCRF; smart00937 617121002784 RF-1 domain; Region: RF-1; pfam00472 617121002785 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 617121002786 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 617121002787 S-adenosylmethionine binding site [chemical binding]; other site 617121002788 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 617121002789 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 617121002790 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 617121002791 Coenzyme A binding pocket [chemical binding]; other site 617121002792 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 617121002793 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 617121002794 dimer interface [polypeptide binding]; other site 617121002795 active site 617121002796 glycine-pyridoxal phosphate binding site [chemical binding]; other site 617121002797 folate binding site [chemical binding]; other site 617121002798 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 617121002799 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 617121002800 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 617121002801 N-acetyl-D-glucosamine binding site [chemical binding]; other site 617121002802 catalytic residue [active] 617121002803 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121002804 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121002805 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121002806 Walker A/P-loop; other site 617121002807 ATP binding site [chemical binding]; other site 617121002808 Q-loop/lid; other site 617121002809 ABC transporter signature motif; other site 617121002810 Walker B; other site 617121002811 D-loop; other site 617121002812 H-loop/switch region; other site 617121002813 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121002814 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121002815 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 617121002816 Walker A/P-loop; other site 617121002817 ATP binding site [chemical binding]; other site 617121002818 Q-loop/lid; other site 617121002819 ABC transporter signature motif; other site 617121002820 Walker B; other site 617121002821 D-loop; other site 617121002822 H-loop/switch region; other site 617121002823 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 617121002824 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 617121002825 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 617121002826 RibD C-terminal domain; Region: RibD_C; cl17279 617121002827 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 617121002828 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 617121002829 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 617121002830 tetramer (dimer of dimers) interface [polypeptide binding]; other site 617121002831 NAD binding site [chemical binding]; other site 617121002832 dimer interface [polypeptide binding]; other site 617121002833 substrate binding site [chemical binding]; other site 617121002834 DNA gyrase subunit A; Validated; Region: PRK05560 617121002835 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 617121002836 CAP-like domain; other site 617121002837 active site 617121002838 primary dimer interface [polypeptide binding]; other site 617121002839 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 617121002840 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 617121002841 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 617121002842 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 617121002843 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 617121002844 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 617121002845 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 617121002846 active site 617121002847 catalytic site [active] 617121002848 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 617121002849 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 617121002850 putative metal binding site [ion binding]; other site 617121002851 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121002852 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 617121002853 similar to laminin-binding surface protein LmB [Streptococcus equi subsp. zooepidemicus MGCS10565] 617121002854 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 617121002855 Predicted secreted protein [Function unknown]; Region: COG4086 617121002856 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 617121002857 similar to ISSag4, transposase OrfA [Streptococcus agalactiae A909]; similar to ISSdy1, transposase OrfB [Streptococcus agalactiae 2603V/R] 617121002858 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 617121002859 HlyD family secretion protein; Region: HlyD_3; pfam13437 617121002860 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 617121002861 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 617121002862 Walker A/P-loop; other site 617121002863 ATP binding site [chemical binding]; other site 617121002864 Q-loop/lid; other site 617121002865 ABC transporter signature motif; other site 617121002866 Walker B; other site 617121002867 D-loop; other site 617121002868 H-loop/switch region; other site 617121002869 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 617121002870 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 617121002871 FtsX-like permease family; Region: FtsX; pfam02687 617121002872 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 617121002873 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 617121002874 active site 617121002875 phosphorylation site [posttranslational modification] 617121002876 intermolecular recognition site; other site 617121002877 dimerization interface [polypeptide binding]; other site 617121002878 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 617121002879 DNA binding site [nucleotide binding] 617121002880 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 617121002881 HAMP domain; Region: HAMP; pfam00672 617121002882 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 617121002883 dimer interface [polypeptide binding]; other site 617121002884 phosphorylation site [posttranslational modification] 617121002885 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 617121002886 ATP binding site [chemical binding]; other site 617121002887 Mg2+ binding site [ion binding]; other site 617121002888 G-X-G motif; other site 617121002889 Surface antigen [General function prediction only]; Region: COG3942 617121002890 CHAP domain; Region: CHAP; pfam05257 617121002891 potential frameshift: common BLAST hit: gi|126699482|ref|YP_001088379.1| oxidoreductase 617121002892 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 617121002893 putative active site [active] 617121002894 catalytic triad [active] 617121002895 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 617121002896 PA/protease domain interface [polypeptide binding]; other site 617121002897 putative integrin binding motif; other site 617121002898 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 617121002899 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 617121002900 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 617121002901 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 617121002902 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 617121002903 metal binding site [ion binding]; metal-binding site 617121002904 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 617121002905 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 617121002906 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 617121002907 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 617121002908 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 617121002909 Walker A/P-loop; other site 617121002910 ATP binding site [chemical binding]; other site 617121002911 Q-loop/lid; other site 617121002912 ABC transporter signature motif; other site 617121002913 Walker B; other site 617121002914 D-loop; other site 617121002915 H-loop/switch region; other site 617121002916 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 617121002917 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 617121002918 Walker A/P-loop; other site 617121002919 ATP binding site [chemical binding]; other site 617121002920 Q-loop/lid; other site 617121002921 ABC transporter signature motif; other site 617121002922 Walker B; other site 617121002923 D-loop; other site 617121002924 H-loop/switch region; other site 617121002925 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 617121002926 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 617121002927 dimer interface [polypeptide binding]; other site 617121002928 conserved gate region; other site 617121002929 putative PBP binding loops; other site 617121002930 ABC-ATPase subunit interface; other site 617121002931 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 617121002932 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 617121002933 dimer interface [polypeptide binding]; other site 617121002934 conserved gate region; other site 617121002935 putative PBP binding loops; other site 617121002936 ABC-ATPase subunit interface; other site 617121002937 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 617121002938 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 617121002939 Transposase; Region: HTH_Tnp_1; pfam01527 617121002940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 617121002941 HTH-like domain; Region: HTH_21; pfam13276 617121002942 Integrase core domain; Region: rve; pfam00665 617121002943 Integrase core domain; Region: rve_3; pfam13683 617121002944 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 617121002945 Integrase core domain; Region: rve; pfam00665 617121002946 FemAB family; Region: FemAB; pfam02388 617121002947 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 617121002948 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 617121002949 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 617121002950 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 617121002951 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121002952 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 617121002953 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 617121002954 Restriction endonuclease EcoRI; Region: EcoRI; pfam02963 617121002955 Adenine-specific methyltransferase EcoRI; Region: EcoRI_methylase; pfam13651 617121002956 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121002957 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 617121002958 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 617121002959 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 617121002960 non-specific DNA binding site [nucleotide binding]; other site 617121002961 salt bridge; other site 617121002962 sequence-specific DNA binding site [nucleotide binding]; other site 617121002963 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 617121002964 Int/Topo IB signature motif; other site 617121002965 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 617121002966 phosphodiesterase; Provisional; Region: PRK12704 617121002967 GMP synthase; Reviewed; Region: guaA; PRK00074 617121002968 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 617121002969 AMP/PPi binding site [chemical binding]; other site 617121002970 candidate oxyanion hole; other site 617121002971 catalytic triad [active] 617121002972 potential glutamine specificity residues [chemical binding]; other site 617121002973 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 617121002974 ATP Binding subdomain [chemical binding]; other site 617121002975 Dimerization subdomain; other site 617121002976 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 617121002977 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 617121002978 DNA-binding site [nucleotide binding]; DNA binding site 617121002979 UTRA domain; Region: UTRA; pfam07702 617121002980 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 617121002981 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 617121002982 signal recognition particle protein; Provisional; Region: PRK10867 617121002983 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 617121002984 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 617121002985 P loop; other site 617121002986 GTP binding site [chemical binding]; other site 617121002987 Signal peptide binding domain; Region: SRP_SPB; pfam02978 617121002988 similar to ferric reductase [Oenococcus oeniPSU-1]; truncated ferric reductase 617121002989 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 617121002990 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 617121002991 non-specific DNA binding site [nucleotide binding]; other site 617121002992 salt bridge; other site 617121002993 sequence-specific DNA binding site [nucleotide binding]; other site 617121002994 Predicted transcriptional regulator [Transcription]; Region: COG2932 617121002995 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 617121002996 Catalytic site [active] 617121002997 putative oxidoreductase; Provisional; Region: PRK10206 617121002998 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 617121002999 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 617121003000 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 617121003001 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 617121003002 active site 617121003003 DNA binding site [nucleotide binding] 617121003004 Int/Topo IB signature motif; other site 617121003005 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 617121003006 trimer interface [polypeptide binding]; other site 617121003007 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 617121003008 UbiA prenyltransferase family; Region: UbiA; pfam01040 617121003009 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 617121003010 ApbE family; Region: ApbE; pfam02424 617121003011 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 617121003012 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 617121003013 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 617121003014 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 617121003015 substrate binding pocket [chemical binding]; other site 617121003016 chain length determination region; other site 617121003017 substrate-Mg2+ binding site; other site 617121003018 catalytic residues [active] 617121003019 aspartate-rich region 1; other site 617121003020 active site lid residues [active] 617121003021 aspartate-rich region 2; other site 617121003022 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 617121003023 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 617121003024 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 617121003025 TQO small subunit DoxD; Region: DoxD; pfam04173 617121003026 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 617121003027 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 617121003028 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 617121003029 ATP binding site [chemical binding]; other site 617121003030 Mg2+ binding site [ion binding]; other site 617121003031 G-X-G motif; other site 617121003032 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 617121003033 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 617121003034 active site 617121003035 phosphorylation site [posttranslational modification] 617121003036 intermolecular recognition site; other site 617121003037 dimerization interface [polypeptide binding]; other site 617121003038 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 617121003039 DNA binding site [nucleotide binding] 617121003040 FtsX-like permease family; Region: FtsX; pfam02687 617121003041 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 617121003042 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 617121003043 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 617121003044 Walker A/P-loop; other site 617121003045 ATP binding site [chemical binding]; other site 617121003046 Q-loop/lid; other site 617121003047 ABC transporter signature motif; other site 617121003048 Walker B; other site 617121003049 D-loop; other site 617121003050 H-loop/switch region; other site 617121003051 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 617121003052 Active site serine [active] 617121003053 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 617121003054 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 617121003055 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 617121003056 putative active site [active] 617121003057 (T/H)XGH motif; other site 617121003058 similar to oxaloacetate decarboxylase [Streptococcus pyogenes MGAS10394] 617121003059 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 617121003060 Glucose inhibited division protein A; Region: GIDA; pfam01134 617121003061 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 617121003062 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 617121003063 NAD binding site [chemical binding]; other site 617121003064 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 617121003065 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 617121003066 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121003067 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 617121003068 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 617121003069 dimerization interface [polypeptide binding]; other site 617121003070 DNA topoisomerase I; Validated; Region: PRK05582 617121003071 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 617121003072 active site 617121003073 interdomain interaction site; other site 617121003074 putative metal-binding site [ion binding]; other site 617121003075 nucleotide binding site [chemical binding]; other site 617121003076 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 617121003077 domain I; other site 617121003078 DNA binding groove [nucleotide binding] 617121003079 phosphate binding site [ion binding]; other site 617121003080 domain II; other site 617121003081 domain III; other site 617121003082 nucleotide binding site [chemical binding]; other site 617121003083 catalytic site [active] 617121003084 domain IV; other site 617121003085 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 617121003086 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 617121003087 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 617121003088 DNA protecting protein DprA; Region: dprA; TIGR00732 617121003089 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 617121003090 RNA/DNA hybrid binding site [nucleotide binding]; other site 617121003091 active site 617121003092 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 617121003093 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 617121003094 GTP/Mg2+ binding site [chemical binding]; other site 617121003095 G4 box; other site 617121003096 G5 box; other site 617121003097 G1 box; other site 617121003098 Switch I region; other site 617121003099 G2 box; other site 617121003100 G3 box; other site 617121003101 Switch II region; other site 617121003102 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 617121003103 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 617121003104 non-specific DNA binding site [nucleotide binding]; other site 617121003105 salt bridge; other site 617121003106 sequence-specific DNA binding site [nucleotide binding]; other site 617121003107 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 617121003108 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 617121003109 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 617121003110 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 617121003111 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 617121003112 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 617121003113 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 617121003114 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 617121003115 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 617121003116 ABC transporter; Region: ABC_tran_2; pfam12848 617121003117 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 617121003118 similar to streptokinase precursor [Streptococcus dysgalactiae subsp. equisimilis]; truncated streptokinase precursor 617121003119 Predicted membrane protein [Function unknown]; Region: COG4720 617121003120 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 617121003121 dimer interface [polypeptide binding]; other site 617121003122 pyridoxal binding site [chemical binding]; other site 617121003123 ATP binding site [chemical binding]; other site 617121003124 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 617121003125 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 617121003126 DNA-binding site [nucleotide binding]; DNA binding site 617121003127 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 617121003128 pyridoxal 5'-phosphate binding site [chemical binding]; other site 617121003129 homodimer interface [polypeptide binding]; other site 617121003130 catalytic residue [active] 617121003131 ATP cone domain; Region: ATP-cone; pfam03477 617121003132 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 617121003133 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 617121003134 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 617121003135 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 617121003136 putative active site [active] 617121003137 catalytic site [active] 617121003138 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 617121003139 putative active site [active] 617121003140 catalytic site [active] 617121003141 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 617121003142 Integrase core domain; Region: rve_3; pfam13683 617121003143 Transposase; Region: HTH_Tnp_1; pfam01527 617121003144 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 617121003145 Transposase; Region: HTH_Tnp_1; pfam01527 617121003146 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 617121003147 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 617121003148 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 617121003149 Potassium binding sites [ion binding]; other site 617121003150 Cesium cation binding sites [ion binding]; other site 617121003151 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 617121003152 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 617121003153 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 617121003154 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 617121003155 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 617121003156 putative ADP-ribose binding site [chemical binding]; other site 617121003157 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 617121003158 lipoyl attachment site [posttranslational modification]; other site 617121003159 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 617121003160 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 617121003161 putative active site [active] 617121003162 putative FMN binding site [chemical binding]; other site 617121003163 putative substrate binding site [chemical binding]; other site 617121003164 putative catalytic residue [active] 617121003165 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 617121003166 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 617121003167 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 617121003168 Flavoprotein; Region: Flavoprotein; pfam02441 617121003169 Predicted membrane protein [Function unknown]; Region: COG4684 617121003170 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 617121003171 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 617121003172 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 617121003173 active site 617121003174 substrate binding site [chemical binding]; other site 617121003175 metal binding site [ion binding]; metal-binding site 617121003176 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 617121003177 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 617121003178 TM-ABC transporter signature motif; other site 617121003179 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 617121003180 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 617121003181 TM-ABC transporter signature motif; other site 617121003182 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 617121003183 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 617121003184 Walker A/P-loop; other site 617121003185 ATP binding site [chemical binding]; other site 617121003186 Q-loop/lid; other site 617121003187 ABC transporter signature motif; other site 617121003188 Walker B; other site 617121003189 D-loop; other site 617121003190 H-loop/switch region; other site 617121003191 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 617121003192 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 617121003193 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 617121003194 ligand binding site [chemical binding]; other site 617121003195 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 617121003196 active site 617121003197 catalytic motif [active] 617121003198 Zn binding site [ion binding]; other site 617121003199 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 617121003200 intersubunit interface [polypeptide binding]; other site 617121003201 active site 617121003202 catalytic residue [active] 617121003203 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 617121003204 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 617121003205 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 617121003206 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 617121003207 Methyltransferase domain; Region: Methyltransf_31; pfam13847 617121003208 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 617121003209 S-adenosylmethionine binding site [chemical binding]; other site 617121003210 pantothenate kinase; Provisional; Region: PRK05439 617121003211 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 617121003212 ATP-binding site [chemical binding]; other site 617121003213 CoA-binding site [chemical binding]; other site 617121003214 Mg2+-binding site [ion binding]; other site 617121003215 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 617121003216 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 617121003217 dimer interface [polypeptide binding]; other site 617121003218 phosphorylation site [posttranslational modification] 617121003219 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 617121003220 ATP binding site [chemical binding]; other site 617121003221 Mg2+ binding site [ion binding]; other site 617121003222 G-X-G motif; other site 617121003223 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 617121003224 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 617121003225 active site 617121003226 phosphorylation site [posttranslational modification] 617121003227 intermolecular recognition site; other site 617121003228 dimerization interface [polypeptide binding]; other site 617121003229 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 617121003230 DNA binding site [nucleotide binding] 617121003231 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 617121003232 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 617121003233 Zn binding site [ion binding]; other site 617121003234 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 617121003235 PhoU domain; Region: PhoU; pfam01895 617121003236 PhoU domain; Region: PhoU; pfam01895 617121003237 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 617121003238 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 617121003239 Walker A/P-loop; other site 617121003240 ATP binding site [chemical binding]; other site 617121003241 Q-loop/lid; other site 617121003242 ABC transporter signature motif; other site 617121003243 Walker B; other site 617121003244 D-loop; other site 617121003245 H-loop/switch region; other site 617121003246 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 617121003247 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 617121003248 Walker A/P-loop; other site 617121003249 ATP binding site [chemical binding]; other site 617121003250 Q-loop/lid; other site 617121003251 ABC transporter signature motif; other site 617121003252 Walker B; other site 617121003253 D-loop; other site 617121003254 H-loop/switch region; other site 617121003255 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 617121003256 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 617121003257 dimer interface [polypeptide binding]; other site 617121003258 conserved gate region; other site 617121003259 putative PBP binding loops; other site 617121003260 ABC-ATPase subunit interface; other site 617121003261 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 617121003262 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 617121003263 dimer interface [polypeptide binding]; other site 617121003264 conserved gate region; other site 617121003265 putative PBP binding loops; other site 617121003266 ABC-ATPase subunit interface; other site 617121003267 PBP superfamily domain; Region: PBP_like_2; cl17296 617121003268 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 617121003269 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 617121003270 S-adenosylmethionine binding site [chemical binding]; other site 617121003271 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 617121003272 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 617121003273 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 617121003274 active site 617121003275 hypothetical protein; Provisional; Region: PRK04387 617121003276 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 617121003277 ArsC family; Region: ArsC; pfam03960 617121003278 putative catalytic residues [active] 617121003279 thiol/disulfide switch; other site 617121003280 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 617121003281 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 617121003282 active site 617121003283 Riboflavin kinase; Region: Flavokinase; pfam01687 617121003284 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 617121003285 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 617121003286 RNA binding site [nucleotide binding]; other site 617121003287 active site 617121003288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 617121003289 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 617121003290 Predicted membrane protein [Function unknown]; Region: COG4129 617121003291 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 617121003292 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 617121003293 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 617121003294 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 617121003295 FtsX-like permease family; Region: FtsX; pfam02687 617121003296 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 617121003297 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 617121003298 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 617121003299 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 617121003300 Walker A/P-loop; other site 617121003301 ATP binding site [chemical binding]; other site 617121003302 Q-loop/lid; other site 617121003303 ABC transporter signature motif; other site 617121003304 Walker B; other site 617121003305 D-loop; other site 617121003306 H-loop/switch region; other site 617121003307 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 617121003308 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 617121003309 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 617121003310 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 617121003311 DNA-binding site [nucleotide binding]; DNA binding site 617121003312 TrkA-C domain; Region: TrkA_C; pfam02080 617121003313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 617121003314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 617121003315 Predicted membrane protein [Function unknown]; Region: COG2261 617121003316 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 617121003317 Part of AAA domain; Region: AAA_19; pfam13245 617121003318 Family description; Region: UvrD_C_2; pfam13538 617121003319 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 617121003320 amino acid carrier protein; Region: agcS; TIGR00835 617121003321 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 617121003322 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 617121003323 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 617121003324 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121003325 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 617121003326 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 617121003327 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 617121003328 substrate binding pocket [chemical binding]; other site 617121003329 membrane-bound complex binding site; other site 617121003330 hinge residues; other site 617121003331 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 617121003332 ATP-binding cassette domain of the binding protein-dependent transport systems; Region: ABC_Class3; cd03229 617121003333 Walker A/P-loop; other site 617121003334 ATP binding site [chemical binding]; other site 617121003335 Q-loop/lid; other site 617121003336 ABC transporter signature motif; other site 617121003337 Walker B; other site 617121003338 D-loop; other site 617121003339 H-loop/switch region; other site 617121003340 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 617121003341 dimer interface [polypeptide binding]; other site 617121003342 conserved gate region; other site 617121003343 ABC-ATPase subunit interface; other site 617121003344 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 617121003345 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 617121003346 PhnA protein; Region: PhnA; pfam03831 617121003347 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 617121003348 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 617121003349 glutaminase active site [active] 617121003350 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 617121003351 dimer interface [polypeptide binding]; other site 617121003352 active site 617121003353 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 617121003354 dimer interface [polypeptide binding]; other site 617121003355 active site 617121003356 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 617121003357 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 617121003358 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 617121003359 pyruvate kinase; Provisional; Region: PRK05826 617121003360 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 617121003361 domain interfaces; other site 617121003362 active site 617121003363 similar to 6-phosphofructokinase [Streptococcus pyogenes MGAS8232] 617121003364 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 617121003365 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 617121003366 active site 617121003367 PHP Thumb interface [polypeptide binding]; other site 617121003368 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 617121003369 generic binding surface II; other site 617121003370 generic binding surface I; other site 617121003371 Predicted transcriptional regulators [Transcription]; Region: COG1725 617121003372 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 617121003373 DNA-binding site [nucleotide binding]; DNA binding site 617121003374 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 617121003375 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 617121003376 Walker A/P-loop; other site 617121003377 ATP binding site [chemical binding]; other site 617121003378 Q-loop/lid; other site 617121003379 ABC transporter signature motif; other site 617121003380 Walker B; other site 617121003381 D-loop; other site 617121003382 H-loop/switch region; other site 617121003383 Uncharacterized conserved protein [Function unknown]; Region: COG0398 617121003384 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 617121003385 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 617121003386 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 617121003387 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 617121003388 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121003389 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 617121003390 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 617121003391 RNA binding site [nucleotide binding]; other site 617121003392 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 617121003393 RNA binding site [nucleotide binding]; other site 617121003394 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 617121003395 RNA binding site [nucleotide binding]; other site 617121003396 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 617121003397 RNA binding site [nucleotide binding]; other site 617121003398 potential protein location (hypothetical protein GGS_1063 [Streptococcus dysgalactiae subsp. equisimilis RE378]) that overlaps RNA (tRNA-Y) 617121003399 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 617121003400 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 617121003401 homodimer interface [polypeptide binding]; other site 617121003402 substrate-cofactor binding pocket; other site 617121003403 catalytic residue [active] 617121003404 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 617121003405 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 617121003406 CAP-like domain; other site 617121003407 active site 617121003408 primary dimer interface [polypeptide binding]; other site 617121003409 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 617121003410 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 617121003411 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 617121003412 Mg2+ binding site [ion binding]; other site 617121003413 G-X-G motif; other site 617121003414 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 617121003415 anchoring element; other site 617121003416 dimer interface [polypeptide binding]; other site 617121003417 ATP binding site [chemical binding]; other site 617121003418 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 617121003419 active site 617121003420 putative metal-binding site [ion binding]; other site 617121003421 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 617121003422 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 617121003423 dihydroorotase; Validated; Region: pyrC; PRK09357 617121003424 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 617121003425 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 617121003426 active site 617121003427 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 617121003428 ligand binding site [chemical binding]; other site 617121003429 active site 617121003430 UGI interface [polypeptide binding]; other site 617121003431 catalytic site [active] 617121003432 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 617121003433 dimer interface [polypeptide binding]; other site 617121003434 conserved gate region; other site 617121003435 putative PBP binding loops; other site 617121003436 ABC-ATPase subunit interface; other site 617121003437 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 617121003438 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 617121003439 substrate binding pocket [chemical binding]; other site 617121003440 membrane-bound complex binding site; other site 617121003441 hinge residues; other site 617121003442 amidase; Provisional; Region: PRK06529 617121003443 Amidase; Region: Amidase; cl11426 617121003444 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 617121003445 Integrase core domain; Region: rve; pfam00665 617121003446 Integrase core domain; Region: rve_2; pfam13333 617121003447 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 617121003448 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 617121003449 Coenzyme A binding pocket [chemical binding]; other site 617121003450 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 617121003451 active site 617121003452 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 617121003453 active site 617121003454 dimer interface [polypeptide binding]; other site 617121003455 Transcriptional regulator [Transcription]; Region: LysR; COG0583 617121003456 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 617121003457 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl09873 617121003458 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 617121003459 purine nucleoside phosphorylase; Provisional; Region: PRK08202 617121003460 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 617121003461 ArsC family; Region: ArsC; pfam03960 617121003462 catalytic residues [active] 617121003463 phosphopentomutase; Provisional; Region: PRK05362 617121003464 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 617121003465 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 617121003466 tetramer (dimer of dimers) interface [polypeptide binding]; other site 617121003467 active site 617121003468 dimer interface [polypeptide binding]; other site 617121003469 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 617121003470 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 617121003471 trmE is a tRNA modification GTPase; Region: trmE; cd04164 617121003472 G1 box; other site 617121003473 GTP/Mg2+ binding site [chemical binding]; other site 617121003474 Switch I region; other site 617121003475 G2 box; other site 617121003476 Switch II region; other site 617121003477 G3 box; other site 617121003478 G4 box; other site 617121003479 G5 box; other site 617121003480 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 617121003481 dipeptidase PepV; Reviewed; Region: PRK07318 617121003482 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 617121003483 active site 617121003484 metal binding site [ion binding]; metal-binding site 617121003485 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 617121003486 dimer interface [polypeptide binding]; other site 617121003487 FMN binding site [chemical binding]; other site 617121003488 putative pyruvate oxidase [Lactobacillus paracasei] resulted from mutation by unknown reason 617121003489 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 617121003490 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 617121003491 GIY-YIG motif/motif A; other site 617121003492 active site 617121003493 catalytic site [active] 617121003494 putative DNA binding site [nucleotide binding]; other site 617121003495 metal binding site [ion binding]; metal-binding site 617121003496 UvrB/uvrC motif; Region: UVR; pfam02151 617121003497 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 617121003498 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 617121003499 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 617121003500 NAD(P) binding site [chemical binding]; other site 617121003501 catalytic residues [active] 617121003502 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 617121003503 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 617121003504 motif I; other site 617121003505 motif II; other site 617121003506 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 617121003507 maltose O-acetyltransferase; Provisional; Region: PRK10092 617121003508 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 617121003509 active site 617121003510 substrate binding site [chemical binding]; other site 617121003511 trimer interface [polypeptide binding]; other site 617121003512 CoA binding site [chemical binding]; other site 617121003513 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 617121003514 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 617121003515 motif II; other site 617121003516 Flagellin N-methylase; Region: FliB; pfam03692 617121003517 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 617121003518 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 617121003519 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 617121003520 Response regulator receiver domain; Region: Response_reg; pfam00072 617121003521 active site 617121003522 phosphorylation site [posttranslational modification] 617121003523 intermolecular recognition site; other site 617121003524 dimerization interface [polypeptide binding]; other site 617121003525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 617121003526 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 617121003527 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 617121003528 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 617121003529 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 617121003530 Histidine kinase; Region: His_kinase; pfam06580 617121003531 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 617121003532 ATP binding site [chemical binding]; other site 617121003533 Mg2+ binding site [ion binding]; other site 617121003534 G-X-G motif; other site 617121003535 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 617121003536 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 617121003537 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3444 617121003538 active site 617121003539 phosphorylation site [posttranslational modification] 617121003540 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 617121003541 active pocket/dimerization site; other site 617121003542 active site 617121003543 phosphorylation site [posttranslational modification] 617121003544 Predicted membrane protein [Function unknown]; Region: COG2855 617121003545 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 617121003546 nucleophilic elbow; other site 617121003547 catalytic triad; other site 617121003548 Enterocin A Immunity; Region: EntA_Immun; pfam08951 617121003549 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 617121003550 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 617121003551 Zn2+ binding site [ion binding]; other site 617121003552 Mg2+ binding site [ion binding]; other site 617121003553 methionine sulfoxide reductase B; Provisional; Region: PRK00222 617121003554 SelR domain; Region: SelR; pfam01641 617121003555 GTP-binding protein LepA; Provisional; Region: PRK05433 617121003556 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 617121003557 G1 box; other site 617121003558 putative GEF interaction site [polypeptide binding]; other site 617121003559 GTP/Mg2+ binding site [chemical binding]; other site 617121003560 Switch I region; other site 617121003561 G2 box; other site 617121003562 G3 box; other site 617121003563 Switch II region; other site 617121003564 G4 box; other site 617121003565 G5 box; other site 617121003566 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 617121003567 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 617121003568 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 617121003569 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 617121003570 active site 617121003571 multimer interface [polypeptide binding]; other site 617121003572 CRISPR/Cas system-associated protein Csn2; Region: Csn2; cd09758 617121003573 CRISPR type II-A/NMEMI-associated protein Csn2; Region: cas_Csn2; TIGR01866 617121003574 tetramer interface [polypeptide binding]; other site 617121003575 putative DNA binding site [nucleotide binding]; other site 617121003576 Ca binding site [ion binding]; other site 617121003577 Ca binding site [ion binding]; other site 617121003578 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 617121003579 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 617121003580 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 617121003581 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 617121003582 CRISPR/Cas system-associated protein Cas9; Region: Csn1; cd09643 617121003583 Predicted membrane protein [Function unknown]; Region: COG4478 617121003584 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 617121003585 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 617121003586 active site 617121003587 motif I; other site 617121003588 motif II; other site 617121003589 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 617121003590 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 617121003591 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 617121003592 active site 617121003593 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 617121003594 active site 2 [active] 617121003595 active site 1 [active] 617121003596 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 617121003597 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 617121003598 FeS/SAM binding site; other site 617121003599 HemN C-terminal domain; Region: HemN_C; pfam06969 617121003600 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 617121003601 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 617121003602 active site 617121003603 substrate binding site [chemical binding]; other site 617121003604 metal binding site [ion binding]; metal-binding site 617121003605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 617121003606 YbbR-like protein; Region: YbbR; pfam07949 617121003607 Uncharacterized conserved protein [Function unknown]; Region: COG1624 617121003608 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 617121003609 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 617121003610 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 617121003611 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 617121003612 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 617121003613 catalytic triad [active] 617121003614 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 617121003615 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 617121003616 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 617121003617 Predicted membrane protein [Function unknown]; Region: COG4709 617121003618 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 617121003619 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 617121003620 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 617121003621 Predicted transcriptional regulators [Transcription]; Region: COG1695 617121003622 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 617121003623 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 617121003624 E3 interaction surface; other site 617121003625 lipoyl attachment site [posttranslational modification]; other site 617121003626 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 617121003627 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 617121003628 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 617121003629 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 617121003630 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 617121003631 E3 interaction surface; other site 617121003632 lipoyl attachment site [posttranslational modification]; other site 617121003633 e3 binding domain; Region: E3_binding; pfam02817 617121003634 e3 binding domain; Region: E3_binding; pfam02817 617121003635 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 617121003636 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 617121003637 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 617121003638 alpha subunit interface [polypeptide binding]; other site 617121003639 TPP binding site [chemical binding]; other site 617121003640 heterodimer interface [polypeptide binding]; other site 617121003641 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 617121003642 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 617121003643 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 617121003644 tetramer interface [polypeptide binding]; other site 617121003645 TPP-binding site [chemical binding]; other site 617121003646 heterodimer interface [polypeptide binding]; other site 617121003647 phosphorylation loop region [posttranslational modification] 617121003648 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 617121003649 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 617121003650 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 617121003651 ABC transporter; Region: ABC_tran_2; pfam12848 617121003652 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 617121003653 Predicted esterase [General function prediction only]; Region: COG0627 617121003654 S-formylglutathione hydrolase; Region: PLN02442 617121003655 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 617121003656 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 617121003657 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 617121003658 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 617121003659 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121003660 Walker A/P-loop; other site 617121003661 ATP binding site [chemical binding]; other site 617121003662 Q-loop/lid; other site 617121003663 ABC transporter signature motif; other site 617121003664 Walker B; other site 617121003665 D-loop; other site 617121003666 H-loop/switch region; other site 617121003667 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 617121003668 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 617121003669 TM-ABC transporter signature motif; other site 617121003670 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 617121003671 zinc binding site [ion binding]; other site 617121003672 putative ligand binding site [chemical binding]; other site 617121003673 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 617121003674 acid phosphatase/phosphotransferase; Provisional; Region: aphA; PRK11009 617121003675 Transposase; Region: HTH_Tnp_1; pfam01527 617121003676 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 617121003677 HTH-like domain; Region: HTH_21; pfam13276 617121003678 Integrase core domain; Region: rve; pfam00665 617121003679 Integrase core domain; Region: rve_3; pfam13683 617121003680 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 617121003681 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121003682 Transposase [DNA replication, recombination, and repair]; Region: COG5433 617121003683 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 617121003684 Domain of unknown function (DUF814); Region: DUF814; pfam05670 617121003685 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 617121003686 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 617121003687 binding surface 617121003688 TPR motif; other site 617121003689 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 617121003690 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 617121003691 Domain of unknown function DUF20; Region: UPF0118; pfam01594 617121003692 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 617121003693 putative active site [active] 617121003694 nucleotide binding site [chemical binding]; other site 617121003695 nudix motif; other site 617121003696 putative metal binding site [ion binding]; other site 617121003697 CAAX protease self-immunity; Region: Abi; pfam02517 617121003698 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 617121003699 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 617121003700 NAD binding site [chemical binding]; other site 617121003701 substrate binding site [chemical binding]; other site 617121003702 homodimer interface [polypeptide binding]; other site 617121003703 active site 617121003704 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 617121003705 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 617121003706 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 617121003707 substrate binding site; other site 617121003708 tetramer interface; other site 617121003709 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 617121003710 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 617121003711 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 617121003712 Uncharacterized conserved protein [Function unknown]; Region: COG0327 617121003713 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 617121003714 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 617121003715 Family of unknown function (DUF633); Region: DUF633; pfam04816 617121003716 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 617121003717 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 617121003718 minor groove reading motif; other site 617121003719 helix-hairpin-helix signature motif; other site 617121003720 substrate binding pocket [chemical binding]; other site 617121003721 active site 617121003722 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 617121003723 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 617121003724 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 617121003725 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 617121003726 active site 617121003727 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 617121003728 DHH family; Region: DHH; pfam01368 617121003729 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 617121003730 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 617121003731 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 617121003732 NAD(P) binding site [chemical binding]; other site 617121003733 active site 617121003734 ribonuclease Z; Region: RNase_Z; TIGR02651 617121003735 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 617121003736 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 617121003737 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 617121003738 HflX GTPase family; Region: HflX; cd01878 617121003739 G1 box; other site 617121003740 GTP/Mg2+ binding site [chemical binding]; other site 617121003741 Switch I region; other site 617121003742 G2 box; other site 617121003743 G3 box; other site 617121003744 Switch II region; other site 617121003745 G4 box; other site 617121003746 G5 box; other site 617121003747 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 617121003748 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 617121003749 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 617121003750 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 617121003751 gating phenylalanine in ion channel; other site 617121003752 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 617121003753 C-terminal domain interface [polypeptide binding]; other site 617121003754 GSH binding site (G-site) [chemical binding]; other site 617121003755 dimer interface [polypeptide binding]; other site 617121003756 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 617121003757 dimer interface [polypeptide binding]; other site 617121003758 N-terminal domain interface [polypeptide binding]; other site 617121003759 substrate binding pocket (H-site) [chemical binding]; other site 617121003760 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 617121003761 active site 617121003762 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 617121003763 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 617121003764 active site residue [active] 617121003765 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 617121003766 Stringent starvation protein B; Region: SspB; cl01120 617121003767 Predicted flavoprotein [General function prediction only]; Region: COG0431 617121003768 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 617121003769 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 617121003770 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 617121003771 4-alpha-glucanotransferase; Provisional; Region: PRK14508 617121003772 Transcriptional regulators [Transcription]; Region: PurR; COG1609 617121003773 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 617121003774 DNA binding site [nucleotide binding] 617121003775 domain linker motif; other site 617121003776 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 617121003777 putative dimerization interface [polypeptide binding]; other site 617121003778 putative ligand binding site [chemical binding]; other site 617121003779 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 617121003780 Helix-turn-helix domain; Region: HTH_38; pfam13936 617121003781 Integrase core domain; Region: rve; pfam00665 617121003782 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 617121003783 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 617121003784 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 617121003785 dimer interface [polypeptide binding]; other site 617121003786 conserved gate region; other site 617121003787 ABC-ATPase subunit interface; other site 617121003788 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 617121003789 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 617121003790 dimer interface [polypeptide binding]; other site 617121003791 conserved gate region; other site 617121003792 putative PBP binding loops; other site 617121003793 ABC-ATPase subunit interface; other site 617121003794 Transcriptional regulators [Transcription]; Region: PurR; COG1609 617121003795 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 617121003796 DNA binding site [nucleotide binding] 617121003797 domain linker motif; other site 617121003798 Predicted integral membrane protein [Function unknown]; Region: COG5521 617121003799 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 617121003800 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 617121003801 dimer interface [polypeptide binding]; other site 617121003802 conserved gate region; other site 617121003803 putative PBP binding loops; other site 617121003804 ABC-ATPase subunit interface; other site 617121003805 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 617121003806 dimer interface [polypeptide binding]; other site 617121003807 conserved gate region; other site 617121003808 ABC-ATPase subunit interface; other site 617121003809 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 617121003810 maltodextrin glucosidase; Provisional; Region: PRK10785 617121003811 homodimer interface [polypeptide binding]; other site 617121003812 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 617121003813 active site 617121003814 homodimer interface [polypeptide binding]; other site 617121003815 catalytic site [active] 617121003816 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 617121003817 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 617121003818 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 617121003819 DltD N-terminal region; Region: DltD_N; pfam04915 617121003820 DltD central region; Region: DltD_M; pfam04918 617121003821 DltD C-terminal region; Region: DltD_C; pfam04914 617121003822 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 617121003823 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 617121003824 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 617121003825 acyl-activating enzyme (AAE) consensus motif; other site 617121003826 AMP binding site [chemical binding]; other site 617121003827 excinuclease ABC subunit B; Provisional; Region: PRK05298 617121003828 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 617121003829 ATP binding site [chemical binding]; other site 617121003830 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 617121003831 nucleotide binding region [chemical binding]; other site 617121003832 ATP-binding site [chemical binding]; other site 617121003833 Ultra-violet resistance protein B; Region: UvrB; pfam12344 617121003834 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 617121003835 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 617121003836 substrate binding pocket [chemical binding]; other site 617121003837 membrane-bound complex binding site; other site 617121003838 hinge residues; other site 617121003839 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 617121003840 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 617121003841 substrate binding pocket [chemical binding]; other site 617121003842 membrane-bound complex binding site; other site 617121003843 hinge residues; other site 617121003844 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 617121003845 dimer interface [polypeptide binding]; other site 617121003846 conserved gate region; other site 617121003847 putative PBP binding loops; other site 617121003848 ABC-ATPase subunit interface; other site 617121003849 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 617121003850 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 617121003851 Walker A/P-loop; other site 617121003852 ATP binding site [chemical binding]; other site 617121003853 Q-loop/lid; other site 617121003854 ABC transporter signature motif; other site 617121003855 Walker B; other site 617121003856 D-loop; other site 617121003857 H-loop/switch region; other site 617121003858 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 617121003859 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 617121003860 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 617121003861 hydrophobic ligand binding site; other site 617121003862 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 617121003863 active site 617121003864 methionine cluster; other site 617121003865 phosphorylation site [posttranslational modification] 617121003866 metal binding site [ion binding]; metal-binding site 617121003867 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 617121003868 active site 617121003869 P-loop; other site 617121003870 phosphorylation site [posttranslational modification] 617121003871 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 617121003872 HTH domain; Region: HTH_11; pfam08279 617121003873 Mga helix-turn-helix domain; Region: Mga; pfam05043 617121003874 PRD domain; Region: PRD; pfam00874 617121003875 PRD domain; Region: PRD; pfam00874 617121003876 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 617121003877 active site 617121003878 P-loop; other site 617121003879 phosphorylation site [posttranslational modification] 617121003880 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 617121003881 active site 617121003882 phosphorylation site [posttranslational modification] 617121003883 Uncharacterized conserved protein [Function unknown]; Region: COG3589 617121003884 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 617121003885 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 617121003886 beta-galactosidase; Region: BGL; TIGR03356 617121003887 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 617121003888 GTPase CgtA; Reviewed; Region: obgE; PRK12297 617121003889 GTP1/OBG; Region: GTP1_OBG; pfam01018 617121003890 Obg GTPase; Region: Obg; cd01898 617121003891 G1 box; other site 617121003892 GTP/Mg2+ binding site [chemical binding]; other site 617121003893 Switch I region; other site 617121003894 G2 box; other site 617121003895 G3 box; other site 617121003896 Switch II region; other site 617121003897 G4 box; other site 617121003898 G5 box; other site 617121003899 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 617121003900 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 617121003901 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 617121003902 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u1; cd12826 617121003903 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 617121003904 Cl binding site [ion binding]; other site 617121003905 oligomer interface [polypeptide binding]; other site 617121003906 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 617121003907 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 617121003908 RNA binding surface [nucleotide binding]; other site 617121003909 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 617121003910 active site 617121003911 uracil binding [chemical binding]; other site 617121003912 Predicted thioesterase [General function prediction only]; Region: COG5496 617121003913 benzoate transport; Region: 2A0115; TIGR00895 617121003914 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 617121003915 putative substrate translocation pore; other site 617121003916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 617121003917 hypothetical protein; Provisional; Region: PRK13663 617121003918 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 617121003919 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 617121003920 Walker A/P-loop; other site 617121003921 ATP binding site [chemical binding]; other site 617121003922 ABC transporter; Region: ABC_tran; pfam00005 617121003923 Q-loop/lid; other site 617121003924 ABC transporter signature motif; other site 617121003925 Walker B; other site 617121003926 D-loop; other site 617121003927 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 617121003928 CoenzymeA binding site [chemical binding]; other site 617121003929 subunit interaction site [polypeptide binding]; other site 617121003930 PHB binding site; other site 617121003931 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Provisional; Region: PRK07164 617121003932 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 617121003933 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 617121003934 Transposase; Region: HTH_Tnp_1; pfam01527 617121003935 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 617121003936 HTH-like domain; Region: HTH_21; pfam13276 617121003937 Integrase core domain; Region: rve; pfam00665 617121003938 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 617121003939 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 617121003940 cofactor binding site; other site 617121003941 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 617121003942 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 617121003943 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 617121003944 catalytic residues [active] 617121003945 catalytic nucleophile [active] 617121003946 Recombinase; Region: Recombinase; pfam07508 617121003947 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 617121003948 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 617121003949 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 617121003950 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 617121003951 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 617121003952 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 617121003953 Walker A/P-loop; other site 617121003954 ATP binding site [chemical binding]; other site 617121003955 Q-loop/lid; other site 617121003956 ABC transporter signature motif; other site 617121003957 Walker B; other site 617121003958 D-loop; other site 617121003959 H-loop/switch region; other site 617121003960 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121003961 Walker A/P-loop; other site 617121003962 ATP binding site [chemical binding]; other site 617121003963 Q-loop/lid; other site 617121003964 ABC transporter signature motif; other site 617121003965 Walker B; other site 617121003966 D-loop; other site 617121003967 H-loop/switch region; other site 617121003968 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 617121003969 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 617121003970 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121003971 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121003972 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121003973 Walker A/P-loop; other site 617121003974 ATP binding site [chemical binding]; other site 617121003975 Q-loop/lid; other site 617121003976 ABC transporter signature motif; other site 617121003977 Walker B; other site 617121003978 D-loop; other site 617121003979 H-loop/switch region; other site 617121003980 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121003981 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121003982 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121003983 Walker A/P-loop; other site 617121003984 ATP binding site [chemical binding]; other site 617121003985 Q-loop/lid; other site 617121003986 ABC transporter signature motif; other site 617121003987 Walker B; other site 617121003988 D-loop; other site 617121003989 H-loop/switch region; other site 617121003990 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 617121003991 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 617121003992 potential frameshift: common BLAST hit: gi|386317293|ref|YP_006013457.1| putative mobilization protein 617121003993 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 617121003994 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 617121003995 ATP binding site [chemical binding]; other site 617121003996 putative Mg++ binding site [ion binding]; other site 617121003997 nucleotide binding region [chemical binding]; other site 617121003998 helicase superfamily c-terminal domain; Region: HELICc; smart00490 617121003999 ATP-binding site [chemical binding]; other site 617121004000 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 617121004001 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 617121004002 Methyltransferase domain; Region: Methyltransf_26; pfam13659 617121004003 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 617121004004 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 617121004005 DEAD-like helicases superfamily; Region: DEXDc; smart00487 617121004006 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 617121004007 helicase superfamily c-terminal domain; Region: HELICc; smart00490 617121004008 nucleotide binding region [chemical binding]; other site 617121004009 ATP-binding site [chemical binding]; other site 617121004010 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 617121004011 Divergent AAA domain; Region: AAA_4; pfam04326 617121004012 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 617121004013 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 617121004014 non-specific DNA interactions [nucleotide binding]; other site 617121004015 DNA binding site [nucleotide binding] 617121004016 sequence specific DNA binding site [nucleotide binding]; other site 617121004017 putative cAMP binding site [chemical binding]; other site 617121004018 DNA topoisomerase III; Provisional; Region: PRK07726 617121004019 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 617121004020 active site 617121004021 putative interdomain interaction site [polypeptide binding]; other site 617121004022 putative metal-binding site [ion binding]; other site 617121004023 putative nucleotide binding site [chemical binding]; other site 617121004024 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 617121004025 domain I; other site 617121004026 DNA binding groove [nucleotide binding] 617121004027 phosphate binding site [ion binding]; other site 617121004028 domain II; other site 617121004029 domain III; other site 617121004030 nucleotide binding site [chemical binding]; other site 617121004031 catalytic site [active] 617121004032 domain IV; other site 617121004033 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 617121004034 NlpC/P60 family; Region: NLPC_P60; cl17555 617121004035 AAA-like domain; Region: AAA_10; pfam12846 617121004036 Domain of unknown function DUF87; Region: DUF87; pfam01935 617121004037 PrgI family protein; Region: PrgI; pfam12666 617121004038 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 617121004039 generic binding surface I; other site 617121004040 generic binding surface II; other site 617121004041 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 617121004042 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 617121004043 ORF6N domain; Region: ORF6N; pfam10543 617121004044 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 617121004045 MobA/MobL family; Region: MobA_MobL; pfam03389 617121004046 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 617121004047 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 617121004048 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 617121004049 DNA binding residues [nucleotide binding] 617121004050 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 617121004051 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 617121004052 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 617121004053 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 617121004054 Walker A/P-loop; other site 617121004055 ATP binding site [chemical binding]; other site 617121004056 Q-loop/lid; other site 617121004057 ABC transporter signature motif; other site 617121004058 Walker B; other site 617121004059 D-loop; other site 617121004060 H-loop/switch region; other site 617121004061 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 617121004062 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121004063 Walker A/P-loop; other site 617121004064 ATP binding site [chemical binding]; other site 617121004065 Q-loop/lid; other site 617121004066 ABC transporter signature motif; other site 617121004067 Walker B; other site 617121004068 D-loop; other site 617121004069 H-loop/switch region; other site 617121004070 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121004071 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121004072 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121004073 Walker A/P-loop; other site 617121004074 ATP binding site [chemical binding]; other site 617121004075 Q-loop/lid; other site 617121004076 ABC transporter signature motif; other site 617121004077 Walker B; other site 617121004078 D-loop; other site 617121004079 H-loop/switch region; other site 617121004080 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121004081 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121004082 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121004083 Walker A/P-loop; other site 617121004084 ATP binding site [chemical binding]; other site 617121004085 Q-loop/lid; other site 617121004086 ABC transporter signature motif; other site 617121004087 Walker B; other site 617121004088 D-loop; other site 617121004089 H-loop/switch region; other site 617121004090 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 617121004091 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 617121004092 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 617121004093 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 617121004094 putative catalytic residues [active] 617121004095 catalytic nucleophile [active] 617121004096 Recombinase; Region: Recombinase; pfam07508 617121004097 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 617121004098 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 617121004099 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 617121004100 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 617121004101 Walker A motif; other site 617121004102 ATP binding site [chemical binding]; other site 617121004103 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 617121004104 hypothetical protein; Validated; Region: PRK08116 617121004105 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 617121004106 Walker A motif; other site 617121004107 ATP binding site [chemical binding]; other site 617121004108 Walker B motif; other site 617121004109 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 617121004110 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 617121004111 TRAM domain; Region: TRAM; pfam01938 617121004112 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 617121004113 S-adenosylmethionine binding site [chemical binding]; other site 617121004114 Transcriptional regulator [Transcription]; Region: LytR; COG1316 617121004115 shikimate kinase; Reviewed; Region: aroK; PRK00131 617121004116 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 617121004117 ADP binding site [chemical binding]; other site 617121004118 magnesium binding site [ion binding]; other site 617121004119 putative shikimate binding site; other site 617121004120 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 617121004121 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 617121004122 hinge; other site 617121004123 active site 617121004124 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 617121004125 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 617121004126 active site 617121004127 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 617121004128 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 617121004129 DNA-binding site [nucleotide binding]; DNA binding site 617121004130 DRTGG domain; Region: DRTGG; pfam07085 617121004131 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 617121004132 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 617121004133 active site 2 [active] 617121004134 active site 1 [active] 617121004135 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 617121004136 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 617121004137 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 617121004138 GA module; Region: GA; cl08325 617121004139 GA module; Region: GA; pfam01468 617121004140 B domain; Region: IgG_binding_B; pfam01378 617121004141 B domain; Region: IgG_binding_B; pfam01378 617121004142 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 617121004143 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 617121004144 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 617121004145 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 617121004146 motif II; other site 617121004147 D-mannonate oxidoreductase; Provisional; Region: PRK08277 617121004148 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 617121004149 putative NAD(P) binding site [chemical binding]; other site 617121004150 active site 617121004151 mannonate dehydratase; Provisional; Region: PRK03906 617121004152 mannonate dehydratase; Region: uxuA; TIGR00695 617121004153 Glucuronate isomerase; Region: UxaC; pfam02614 617121004154 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 617121004155 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 617121004156 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 617121004157 active site 617121004158 intersubunit interface [polypeptide binding]; other site 617121004159 catalytic residue [active] 617121004160 Transcriptional regulators [Transcription]; Region: FadR; COG2186 617121004161 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 617121004162 DNA-binding site [nucleotide binding]; DNA binding site 617121004163 FCD domain; Region: FCD; pfam07729 617121004164 potential frameshift: common BLAST hit: gi|386317329|ref|YP_006013493.1| beta-D-glucuronidase 617121004165 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 617121004166 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 617121004167 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 617121004168 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 617121004169 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 617121004170 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 617121004171 substrate binding site [chemical binding]; other site 617121004172 ATP binding site [chemical binding]; other site 617121004173 MFS/sugar transport protein; Region: MFS_2; pfam13347 617121004174 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 617121004175 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 617121004176 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 617121004177 hinge; other site 617121004178 active site 617121004179 S-adenosylmethionine synthetase; Validated; Region: PRK05250 617121004180 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 617121004181 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 617121004182 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 617121004183 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 617121004184 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 617121004185 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 617121004186 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 617121004187 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 617121004188 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 617121004189 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 617121004190 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 617121004191 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 617121004192 Biotin operon repressor [Transcription]; Region: BirA; COG1654 617121004193 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 617121004194 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 617121004195 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 617121004196 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 617121004197 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 617121004198 Walker A motif; other site 617121004199 ATP binding site [chemical binding]; other site 617121004200 Walker B motif; other site 617121004201 arginine finger; other site 617121004202 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 617121004203 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 617121004204 similar to hypothetical protein M6_Spy1088 [Streptococcus pyogenes MGAS10394] 617121004205 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 617121004206 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 617121004207 Sugar specificity; other site 617121004208 Pyrimidine base specificity; other site 617121004209 ATP-binding site [chemical binding]; other site 617121004210 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 617121004211 DEAD-like helicases superfamily; Region: DEXDc; smart00487 617121004212 ATP binding site [chemical binding]; other site 617121004213 putative Mg++ binding site [ion binding]; other site 617121004214 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 617121004215 nucleotide binding region [chemical binding]; other site 617121004216 ATP-binding site [chemical binding]; other site 617121004217 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 617121004218 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 617121004219 NodB motif; other site 617121004220 active site 617121004221 catalytic site [active] 617121004222 Zn binding site [ion binding]; other site 617121004223 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 617121004224 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 617121004225 tetrameric interface [polypeptide binding]; other site 617121004226 activator binding site; other site 617121004227 NADP binding site [chemical binding]; other site 617121004228 substrate binding site [chemical binding]; other site 617121004229 catalytic residues [active] 617121004230 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 617121004231 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 617121004232 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 617121004233 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 617121004234 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 617121004235 potential frameshift: common BLAST hit: gi|386317347|ref|YP_006013511.1| ribonucleotide-diphosphate reductase subunit alpha 617121004236 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 617121004237 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 617121004238 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 617121004239 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 617121004240 dimer interface [polypeptide binding]; other site 617121004241 putative radical transfer pathway; other site 617121004242 diiron center [ion binding]; other site 617121004243 tyrosyl radical; other site 617121004244 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 617121004245 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 617121004246 putative ion selectivity filter; other site 617121004247 putative pore gating glutamate residue; other site 617121004248 CAAX protease self-immunity; Region: Abi; pfam02517 617121004249 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 617121004250 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 617121004251 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 617121004252 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 617121004253 motif 1; other site 617121004254 active site 617121004255 motif 2; other site 617121004256 motif 3; other site 617121004257 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 617121004258 DHHA1 domain; Region: DHHA1; pfam02272 617121004259 Tubby C 2; Region: Tub_2; cl02043 617121004260 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 617121004261 GH3 auxin-responsive promoter; Region: GH3; pfam03321 617121004262 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 617121004263 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 617121004264 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 617121004265 S-adenosylmethionine binding site [chemical binding]; other site 617121004266 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 617121004267 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 617121004268 putative substrate translocation pore; other site 617121004269 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 617121004270 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 617121004271 motif II; other site 617121004272 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 617121004273 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 617121004274 Coenzyme A binding pocket [chemical binding]; other site 617121004275 Predicted flavoprotein [General function prediction only]; Region: COG0431 617121004276 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 617121004277 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 617121004278 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 617121004279 active site 617121004280 Zn binding site [ion binding]; other site 617121004281 Competence protein CoiA-like family; Region: CoiA; cl11541 617121004282 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 617121004283 Major Facilitator Superfamily; Region: MFS_1; pfam07690 617121004284 putative substrate translocation pore; other site 617121004285 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 617121004286 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 617121004287 RNA binding surface [nucleotide binding]; other site 617121004288 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 617121004289 active site 617121004290 uracil binding [chemical binding]; other site 617121004291 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 617121004292 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 617121004293 active site 617121004294 trimer interface [polypeptide binding]; other site 617121004295 allosteric site; other site 617121004296 active site lid [active] 617121004297 hexamer (dimer of trimers) interface [polypeptide binding]; other site 617121004298 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 617121004299 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 617121004300 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 617121004301 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 617121004302 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 617121004303 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 617121004304 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 617121004305 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 617121004306 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 617121004307 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 617121004308 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 617121004309 Competence protein; Region: Competence; pfam03772 617121004310 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 617121004311 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 617121004312 SLBB domain; Region: SLBB; pfam10531 617121004313 comEA protein; Region: comE; TIGR01259 617121004314 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 617121004315 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 617121004316 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 617121004317 putative acyl-acceptor binding pocket; other site 617121004318 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 617121004319 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 617121004320 S-adenosylmethionine binding site [chemical binding]; other site 617121004321 K+ potassium transporter; Region: K_trans; cl15781 617121004322 helicase 45; Provisional; Region: PTZ00424 617121004323 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 617121004324 ATP binding site [chemical binding]; other site 617121004325 Mg++ binding site [ion binding]; other site 617121004326 motif III; other site 617121004327 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 617121004328 nucleotide binding region [chemical binding]; other site 617121004329 ATP-binding site [chemical binding]; other site 617121004330 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 617121004331 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 617121004332 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 617121004333 dimer interface [polypeptide binding]; other site 617121004334 conserved gate region; other site 617121004335 putative PBP binding loops; other site 617121004336 ABC-ATPase subunit interface; other site 617121004337 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 617121004338 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121004339 Walker A/P-loop; other site 617121004340 ATP binding site [chemical binding]; other site 617121004341 Q-loop/lid; other site 617121004342 ABC transporter signature motif; other site 617121004343 Walker B; other site 617121004344 D-loop; other site 617121004345 H-loop/switch region; other site 617121004346 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 617121004347 pentamer interface [polypeptide binding]; other site 617121004348 dodecaamer interface [polypeptide binding]; other site 617121004349 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 617121004350 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 617121004351 G1 box; other site 617121004352 putative GEF interaction site [polypeptide binding]; other site 617121004353 GTP/Mg2+ binding site [chemical binding]; other site 617121004354 Switch I region; other site 617121004355 G2 box; other site 617121004356 G3 box; other site 617121004357 Switch II region; other site 617121004358 G4 box; other site 617121004359 G5 box; other site 617121004360 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 617121004361 conserved hypothetical integral membrane protein TIGR02206; Region: intg_mem_TP0381 617121004362 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 617121004363 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 617121004364 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 617121004365 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 617121004366 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 617121004367 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 617121004368 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 617121004369 recombination protein RecR; Reviewed; Region: recR; PRK00076 617121004370 RecR protein; Region: RecR; pfam02132 617121004371 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 617121004372 putative active site [active] 617121004373 putative metal-binding site [ion binding]; other site 617121004374 tetramer interface [polypeptide binding]; other site 617121004375 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 617121004376 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 617121004377 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 617121004378 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 617121004379 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 617121004380 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 617121004381 HTH domain; Region: HTH_11; pfam08279 617121004382 3H domain; Region: 3H; pfam02829 617121004383 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 617121004384 catalytic core [active] 617121004385 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 617121004386 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 617121004387 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 617121004388 active site 617121004389 FMN binding site [chemical binding]; other site 617121004390 substrate binding site [chemical binding]; other site 617121004391 catalytic residues [active] 617121004392 homodimer interface [polypeptide binding]; other site 617121004393 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 617121004394 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 617121004395 Soluble P-type ATPase [General function prediction only]; Region: COG4087 617121004396 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 617121004397 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 617121004398 non-specific DNA binding site [nucleotide binding]; other site 617121004399 salt bridge; other site 617121004400 sequence-specific DNA binding site [nucleotide binding]; other site 617121004401 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 617121004402 H+ Antiporter protein; Region: 2A0121; TIGR00900 617121004403 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 617121004404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4698 617121004405 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 617121004406 active site 617121004407 catalytic triad [active] 617121004408 oxyanion hole [active] 617121004409 EDD domain protein, DegV family; Region: DegV; TIGR00762 617121004410 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 617121004411 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 617121004412 similar to transposase [Streptococcus pyogenes MGAS5005] 617121004413 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 617121004414 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 617121004415 Walker A/P-loop; other site 617121004416 ATP binding site [chemical binding]; other site 617121004417 Q-loop/lid; other site 617121004418 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 617121004419 ABC transporter signature motif; other site 617121004420 Walker B; other site 617121004421 D-loop; other site 617121004422 H-loop/switch region; other site 617121004423 Arginine repressor [Transcription]; Region: ArgR; COG1438 617121004424 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 617121004425 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 617121004426 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 617121004427 RNA binding surface [nucleotide binding]; other site 617121004428 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 617121004429 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 617121004430 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 617121004431 substrate binding pocket [chemical binding]; other site 617121004432 chain length determination region; other site 617121004433 substrate-Mg2+ binding site; other site 617121004434 catalytic residues [active] 617121004435 aspartate-rich region 1; other site 617121004436 active site lid residues [active] 617121004437 aspartate-rich region 2; other site 617121004438 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 617121004439 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 617121004440 generic binding surface II; other site 617121004441 generic binding surface I; other site 617121004442 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 617121004443 putative substrate binding site [chemical binding]; other site 617121004444 putative ATP binding site [chemical binding]; other site 617121004445 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 617121004446 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 617121004447 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 617121004448 homodimer interface [polypeptide binding]; other site 617121004449 NADP binding site [chemical binding]; other site 617121004450 substrate binding site [chemical binding]; other site 617121004451 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 617121004452 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 617121004453 active site 617121004454 substrate binding site [chemical binding]; other site 617121004455 metal binding site [ion binding]; metal-binding site 617121004456 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 617121004457 DNA photolyase; Region: DNA_photolyase; pfam00875 617121004458 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 617121004459 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 617121004460 G1 box; other site 617121004461 GTP/Mg2+ binding site [chemical binding]; other site 617121004462 Switch I region; other site 617121004463 G2 box; other site 617121004464 G3 box; other site 617121004465 Switch II region; other site 617121004466 G4 box; other site 617121004467 G5 box; other site 617121004468 Nucleoside recognition; Region: Gate; pfam07670 617121004469 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 617121004470 Nucleoside recognition; Region: Gate; pfam07670 617121004471 FeoA domain; Region: FeoA; pfam04023 617121004472 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 617121004473 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 617121004474 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 617121004475 Walker A/P-loop; other site 617121004476 ATP binding site [chemical binding]; other site 617121004477 Q-loop/lid; other site 617121004478 ABC transporter signature motif; other site 617121004479 Walker B; other site 617121004480 D-loop; other site 617121004481 H-loop/switch region; other site 617121004482 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 617121004483 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 617121004484 dimer interface [polypeptide binding]; other site 617121004485 conserved gate region; other site 617121004486 putative PBP binding loops; other site 617121004487 ABC-ATPase subunit interface; other site 617121004488 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 617121004489 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 617121004490 Walker A motif; other site 617121004491 ATP binding site [chemical binding]; other site 617121004492 Walker B motif; other site 617121004493 arginine finger; other site 617121004494 UvrB/uvrC motif; Region: UVR; pfam02151 617121004495 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 617121004496 Walker A motif; other site 617121004497 ATP binding site [chemical binding]; other site 617121004498 Walker B motif; other site 617121004499 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 617121004500 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 617121004501 nudix motif; other site 617121004502 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 617121004503 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 617121004504 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 617121004505 active site 617121004506 HIGH motif; other site 617121004507 nucleotide binding site [chemical binding]; other site 617121004508 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 617121004509 active site 617121004510 KMSKS motif; other site 617121004511 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 617121004512 tRNA binding surface [nucleotide binding]; other site 617121004513 anticodon binding site; other site 617121004514 DivIVA protein; Region: DivIVA; pfam05103 617121004515 DivIVA domain; Region: DivI1A_domain; TIGR03544 617121004516 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 617121004517 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 617121004518 RNA binding surface [nucleotide binding]; other site 617121004519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 617121004520 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 617121004521 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 617121004522 catalytic residue [active] 617121004523 cell division protein FtsZ; Validated; Region: PRK09330 617121004524 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 617121004525 nucleotide binding site [chemical binding]; other site 617121004526 SulA interaction site; other site 617121004527 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 617121004528 Cell division protein FtsA; Region: FtsA; smart00842 617121004529 Cell division protein FtsA; Region: FtsA; pfam14450 617121004530 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 617121004531 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 617121004532 Cell division protein FtsQ; Region: FtsQ; pfam03799 617121004533 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 617121004534 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 617121004535 homodimer interface [polypeptide binding]; other site 617121004536 active site 617121004537 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 617121004538 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 617121004539 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 617121004540 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 617121004541 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 617121004542 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 617121004543 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 617121004544 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 617121004545 G1 box; other site 617121004546 putative GEF interaction site [polypeptide binding]; other site 617121004547 GTP/Mg2+ binding site [chemical binding]; other site 617121004548 Switch I region; other site 617121004549 G2 box; other site 617121004550 G3 box; other site 617121004551 Switch II region; other site 617121004552 G4 box; other site 617121004553 G5 box; other site 617121004554 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 617121004555 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 617121004556 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 617121004557 active site residue [active] 617121004558 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 617121004559 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 617121004560 nucleotide binding site [chemical binding]; other site 617121004561 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 617121004562 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 617121004563 dimerization interface [polypeptide binding]; other site 617121004564 DPS ferroxidase diiron center [ion binding]; other site 617121004565 ion pore; other site 617121004566 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 617121004567 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121004568 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121004569 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 617121004570 Walker A/P-loop; other site 617121004571 ATP binding site [chemical binding]; other site 617121004572 Q-loop/lid; other site 617121004573 ABC transporter signature motif; other site 617121004574 Walker B; other site 617121004575 D-loop; other site 617121004576 H-loop/switch region; other site 617121004577 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121004578 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 617121004579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121004580 Walker A/P-loop; other site 617121004581 ATP binding site [chemical binding]; other site 617121004582 Q-loop/lid; other site 617121004583 ABC transporter signature motif; other site 617121004584 Walker B; other site 617121004585 D-loop; other site 617121004586 H-loop/switch region; other site 617121004587 VanZ like family; Region: VanZ; pfam04892 617121004588 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 617121004589 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 617121004590 FeS/SAM binding site; other site 617121004591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 617121004592 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121004593 Transposase [DNA replication, recombination, and repair]; Region: COG5433 617121004594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 617121004595 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 617121004596 NAD(P) binding site [chemical binding]; other site 617121004597 active site 617121004598 Transposase; Region: DEDD_Tnp_IS110; pfam01548 617121004599 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 617121004600 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 617121004601 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 617121004602 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 617121004603 ligand binding site [chemical binding]; other site 617121004604 dimerization interface [polypeptide binding]; other site 617121004605 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 617121004606 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 617121004607 TM-ABC transporter signature motif; other site 617121004608 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 617121004609 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 617121004610 Walker A/P-loop; other site 617121004611 ATP binding site [chemical binding]; other site 617121004612 Q-loop/lid; other site 617121004613 ABC transporter signature motif; other site 617121004614 Walker B; other site 617121004615 D-loop; other site 617121004616 H-loop/switch region; other site 617121004617 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 617121004618 D-ribose pyranase; Provisional; Region: PRK11797 617121004619 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 617121004620 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 617121004621 substrate binding site [chemical binding]; other site 617121004622 dimer interface [polypeptide binding]; other site 617121004623 ATP binding site [chemical binding]; other site 617121004624 Transcriptional regulators [Transcription]; Region: PurR; COG1609 617121004625 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 617121004626 DNA binding site [nucleotide binding] 617121004627 domain linker motif; other site 617121004628 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 617121004629 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 617121004630 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 617121004631 protein binding site [polypeptide binding]; other site 617121004632 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 617121004633 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 617121004634 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 617121004635 active site 617121004636 (T/H)XGH motif; other site 617121004637 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 617121004638 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 617121004639 S-adenosylmethionine binding site [chemical binding]; other site 617121004640 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 617121004641 dimer interface [polypeptide binding]; other site 617121004642 active site 617121004643 carbamate kinase; Reviewed; Region: PRK12686 617121004644 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 617121004645 putative substrate binding site [chemical binding]; other site 617121004646 nucleotide binding site [chemical binding]; other site 617121004647 nucleotide binding site [chemical binding]; other site 617121004648 homodimer interface [polypeptide binding]; other site 617121004649 Transposase; Region: DEDD_Tnp_IS110; pfam01548 617121004650 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 617121004651 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 617121004652 hypothetical protein; Provisional; Region: PRK07205 617121004653 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 617121004654 active site 617121004655 metal binding site [ion binding]; metal-binding site 617121004656 Predicted membrane protein [Function unknown]; Region: COG1288 617121004657 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 617121004658 ornithine carbamoyltransferase; Validated; Region: PRK02102 617121004659 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 617121004660 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 617121004661 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 617121004662 Coenzyme A binding pocket [chemical binding]; other site 617121004663 arginine deiminase; Provisional; Region: PRK01388 617121004664 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 617121004665 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 617121004666 ligand binding site [chemical binding]; other site 617121004667 flexible hinge region; other site 617121004668 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 617121004669 putative switch regulator; other site 617121004670 non-specific DNA interactions [nucleotide binding]; other site 617121004671 DNA binding site [nucleotide binding] 617121004672 sequence specific DNA binding site [nucleotide binding]; other site 617121004673 putative cAMP binding site [chemical binding]; other site 617121004674 Arginine repressor [Transcription]; Region: ArgR; COG1438 617121004675 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 617121004676 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 617121004677 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 617121004678 B3/4 domain; Region: B3_4; pfam03483 617121004679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 617121004680 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 617121004681 Cache domain; Region: Cache_1; pfam02743 617121004682 HAMP domain; Region: HAMP; pfam00672 617121004683 Histidine kinase; Region: His_kinase; pfam06580 617121004684 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 617121004685 ATP binding site [chemical binding]; other site 617121004686 Mg2+ binding site [ion binding]; other site 617121004687 G-X-G motif; other site 617121004688 Response regulator receiver domain; Region: Response_reg; pfam00072 617121004689 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 617121004690 active site 617121004691 phosphorylation site [posttranslational modification] 617121004692 intermolecular recognition site; other site 617121004693 dimerization interface [polypeptide binding]; other site 617121004694 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 617121004695 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 617121004696 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 617121004697 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 617121004698 SelR domain; Region: SelR; pfam01641 617121004699 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 617121004700 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 617121004701 catalytic residues [active] 617121004702 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 617121004703 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 617121004704 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 617121004705 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 617121004706 Cl binding site [ion binding]; other site 617121004707 oligomer interface [polypeptide binding]; other site 617121004708 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 617121004709 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 617121004710 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 617121004711 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 617121004712 CRISPR-associated protein Cas4 (RecB family exonuclease) [Defense mechanisms]; Region: COG1468 617121004713 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 617121004714 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 617121004715 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09651 617121004716 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 617121004717 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 617121004718 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 617121004719 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 617121004720 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 617121004721 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 617121004722 active site 617121004723 HIGH motif; other site 617121004724 nucleotide binding site [chemical binding]; other site 617121004725 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 617121004726 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 617121004727 active site 617121004728 KMSKS motif; other site 617121004729 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 617121004730 tRNA binding surface [nucleotide binding]; other site 617121004731 anticodon binding site; other site 617121004732 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 617121004733 AAA domain; Region: AAA_18; pfam13238 617121004734 AAA domain; Region: AAA_17; pfam13207 617121004735 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 617121004736 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 617121004737 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 617121004738 putative dimer interface [polypeptide binding]; other site 617121004739 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 617121004740 ligand binding site [chemical binding]; other site 617121004741 Zn binding site [ion binding]; other site 617121004742 hypothetical protein; Provisional; Region: PRK07758 617121004743 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 617121004744 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 617121004745 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 617121004746 3-deoxy-7-phosphoheptulonate synthase; Provisional; Region: PRK13397 617121004747 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 617121004748 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 617121004749 active site 617121004750 dimer interface [polypeptide binding]; other site 617121004751 metal binding site [ion binding]; metal-binding site 617121004752 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 617121004753 Membrane transport protein; Region: Mem_trans; cl09117 617121004754 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 617121004755 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 617121004756 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 617121004757 shikimate binding site; other site 617121004758 NAD(P) binding site [chemical binding]; other site 617121004759 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 617121004760 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 617121004761 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 617121004762 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 617121004763 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 617121004764 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 617121004765 active site 617121004766 phosphorylation site [posttranslational modification] 617121004767 intermolecular recognition site; other site 617121004768 dimerization interface [polypeptide binding]; other site 617121004769 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 617121004770 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 617121004771 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 617121004772 Histidine kinase; Region: His_kinase; pfam06580 617121004773 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 617121004774 ATP binding site [chemical binding]; other site 617121004775 Mg2+ binding site [ion binding]; other site 617121004776 G-X-G motif; other site 617121004777 Predicted integral membrane protein [Function unknown]; Region: COG5578 617121004778 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 617121004779 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 617121004780 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 617121004781 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 617121004782 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 617121004783 dimer interface [polypeptide binding]; other site 617121004784 conserved gate region; other site 617121004785 putative PBP binding loops; other site 617121004786 ABC-ATPase subunit interface; other site 617121004787 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 617121004788 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 617121004789 putative PBP binding loops; other site 617121004790 dimer interface [polypeptide binding]; other site 617121004791 ABC-ATPase subunit interface; other site 617121004792 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 617121004793 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 617121004794 nucleotide binding site [chemical binding]; other site 617121004795 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 617121004796 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 617121004797 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 617121004798 beta-galactosidase; Region: BGL; TIGR03356 617121004799 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 617121004800 Transcriptional regulators [Transcription]; Region: FadR; COG2186 617121004801 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 617121004802 DNA-binding site [nucleotide binding]; DNA binding site 617121004803 Transcriptional regulators [Transcription]; Region: PurR; COG1609 617121004804 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 617121004805 ligand binding site [chemical binding]; other site 617121004806 dimerization interface [polypeptide binding]; other site 617121004807 Uncharacterized conserved protein [Function unknown]; Region: COG3538 617121004808 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 617121004809 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 617121004810 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 617121004811 active site 617121004812 metal binding site [ion binding]; metal-binding site 617121004813 homodimer interface [polypeptide binding]; other site 617121004814 catalytic site [active] 617121004815 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 617121004816 ParB-like nuclease domain; Region: ParB; smart00470 617121004817 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 617121004818 DM4/DM12 family; Region: DM4_12; cl11657 617121004819 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 617121004820 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 617121004821 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 617121004822 acyl-CoA synthetase; Validated; Region: PRK08316 617121004823 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 617121004824 acyl-activating enzyme (AAE) consensus motif; other site 617121004825 AMP binding site [chemical binding]; other site 617121004826 active site 617121004827 CoA binding site [chemical binding]; other site 617121004828 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 617121004829 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 617121004830 FMN binding site [chemical binding]; other site 617121004831 substrate binding site [chemical binding]; other site 617121004832 putative catalytic residue [active] 617121004833 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 617121004834 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 617121004835 dimer interface [polypeptide binding]; other site 617121004836 active site 617121004837 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 617121004838 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 617121004839 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 617121004840 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 617121004841 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 617121004842 enoyl-CoA hydratase; Region: PLN02600 617121004843 substrate binding site [chemical binding]; other site 617121004844 oxyanion hole (OAH) forming residues; other site 617121004845 trimer interface [polypeptide binding]; other site 617121004846 similar to transposase IS4 family protein [Streptococcus suis 89/1591] 617121004847 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 617121004848 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121004849 Walker A/P-loop; other site 617121004850 ATP binding site [chemical binding]; other site 617121004851 Q-loop/lid; other site 617121004852 ABC transporter signature motif; other site 617121004853 Walker B; other site 617121004854 D-loop; other site 617121004855 H-loop/switch region; other site 617121004856 TRAM domain; Region: TRAM; pfam01938 617121004857 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 617121004858 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 617121004859 S-adenosylmethionine binding site [chemical binding]; other site 617121004860 recombination regulator RecX; Provisional; Region: recX; PRK14135 617121004861 hypothetical protein; Provisional; Region: PRK13662 617121004862 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 617121004863 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 617121004864 Integrase core domain; Region: rve; pfam00665 617121004865 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 617121004866 30S subunit binding site; other site 617121004867 similar to hypothetical protein gbs1118 [Streptococcus agalactiae NEM316] 617121004868 ParB-like nuclease domain; Region: ParBc; pfam02195 617121004869 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 617121004870 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 617121004871 DNA methylase; Region: N6_N4_Mtase; pfam01555 617121004872 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 617121004873 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 617121004874 Toprim-like; Region: Toprim_2; pfam13155 617121004875 Domain of unknown function (DUF955); Region: DUF955; pfam06114 617121004876 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 617121004877 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 617121004878 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 617121004879 Peptidase family M23; Region: Peptidase_M23; pfam01551 617121004880 Surface antigen [General function prediction only]; Region: COG3942 617121004881 CHAP domain; Region: CHAP; pfam05257 617121004882 AAA-like domain; Region: AAA_10; pfam12846 617121004883 PrgI family protein; Region: PrgI; pfam12666 617121004884 putative cross-wall-targeting lipoprotein signal; Region: strep_RK_lipo; TIGR03726 617121004885 adhesin isopeptide-forming domain, sspB-C2 type; Region: isopep_sspB_C2; TIGR04228 617121004886 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 617121004887 putative active site [active] 617121004888 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 617121004889 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 617121004890 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 617121004891 active site 617121004892 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 617121004893 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 617121004894 ATP binding site [chemical binding]; other site 617121004895 putative Mg++ binding site [ion binding]; other site 617121004896 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 617121004897 nucleotide binding region [chemical binding]; other site 617121004898 ATP-binding site [chemical binding]; other site 617121004899 Uncharacterized conserved protein [Function unknown]; Region: COG1739 617121004900 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 617121004901 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 617121004902 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 617121004903 dimer interface [polypeptide binding]; other site 617121004904 pyridoxal 5'-phosphate binding site [chemical binding]; other site 617121004905 catalytic residue [active] 617121004906 hypothetical protein; Provisional; Region: PRK07252 617121004907 general stress protein 13; Validated; Region: PRK08059 617121004908 RNA binding site [nucleotide binding]; other site 617121004909 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 617121004910 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 617121004911 active site 617121004912 motif I; other site 617121004913 motif II; other site 617121004914 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 617121004915 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 617121004916 active site 617121004917 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 617121004918 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 617121004919 active site 617121004920 phosphorylation site [posttranslational modification] 617121004921 intermolecular recognition site; other site 617121004922 dimerization interface [polypeptide binding]; other site 617121004923 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 617121004924 DNA binding residues [nucleotide binding] 617121004925 dimerization interface [polypeptide binding]; other site 617121004926 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 617121004927 Histidine kinase; Region: HisKA_3; pfam07730 617121004928 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 617121004929 ATP binding site [chemical binding]; other site 617121004930 Mg2+ binding site [ion binding]; other site 617121004931 G-X-G motif; other site 617121004932 Predicted membrane protein [Function unknown]; Region: COG4758 617121004933 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 617121004934 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 617121004935 Catalytic domain of Protein Kinases; Region: PKc; cd00180 617121004936 active site 617121004937 ATP binding site [chemical binding]; other site 617121004938 substrate binding site [chemical binding]; other site 617121004939 activation loop (A-loop); other site 617121004940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 617121004941 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 617121004942 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 617121004943 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 617121004944 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 617121004945 active site 617121004946 16S rRNA methyltransferase B; Provisional; Region: PRK14902 617121004947 NusB family; Region: NusB; pfam01029 617121004948 putative RNA binding site [nucleotide binding]; other site 617121004949 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 617121004950 S-adenosylmethionine binding site [chemical binding]; other site 617121004951 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 617121004952 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 617121004953 putative active site [active] 617121004954 substrate binding site [chemical binding]; other site 617121004955 putative cosubstrate binding site; other site 617121004956 catalytic site [active] 617121004957 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 617121004958 substrate binding site [chemical binding]; other site 617121004959 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 617121004960 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 617121004961 ATP binding site [chemical binding]; other site 617121004962 putative Mg++ binding site [ion binding]; other site 617121004963 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 617121004964 ATP-binding site [chemical binding]; other site 617121004965 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 617121004966 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 617121004967 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 617121004968 catalytic site [active] 617121004969 G-X2-G-X-G-K; other site 617121004970 hypothetical protein; Provisional; Region: PRK00106 617121004971 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 617121004972 Zn2+ binding site [ion binding]; other site 617121004973 Mg2+ binding site [ion binding]; other site 617121004974 Transcriptional regulator [Transcription]; Region: LysR; COG0583 617121004975 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 617121004976 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 617121004977 dimerization interface [polypeptide binding]; other site 617121004978 putative acyltransferase; Provisional; Region: PRK05790 617121004979 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 617121004980 dimer interface [polypeptide binding]; other site 617121004981 active site 617121004982 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 617121004983 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 617121004984 classical (c) SDRs; Region: SDR_c; cd05233 617121004985 NAD(P) binding site [chemical binding]; other site 617121004986 active site 617121004987 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 617121004988 S-ribosylhomocysteinase; Provisional; Region: PRK02260 617121004989 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 617121004990 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 617121004991 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 617121004992 cell division protein GpsB; Provisional; Region: PRK14127 617121004993 DivIVA domain; Region: DivI1A_domain; TIGR03544 617121004994 hypothetical protein; Provisional; Region: PRK13660 617121004995 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 617121004996 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 617121004997 Transglycosylase; Region: Transgly; pfam00912 617121004998 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 617121004999 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 617121005000 trimer interface [polypeptide binding]; other site 617121005001 active site 617121005002 G bulge; other site 617121005003 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 617121005004 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 617121005005 homodimer interface [polypeptide binding]; other site 617121005006 NAD binding pocket [chemical binding]; other site 617121005007 ATP binding pocket [chemical binding]; other site 617121005008 Mg binding site [ion binding]; other site 617121005009 active-site loop [active] 617121005010 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 617121005011 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 617121005012 active site 617121005013 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 617121005014 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 617121005015 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 617121005016 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 617121005017 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 617121005018 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 617121005019 Walker A/P-loop; other site 617121005020 ATP binding site [chemical binding]; other site 617121005021 Q-loop/lid; other site 617121005022 ABC transporter signature motif; other site 617121005023 Walker B; other site 617121005024 D-loop; other site 617121005025 H-loop/switch region; other site 617121005026 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 617121005027 dimer interface [polypeptide binding]; other site 617121005028 conserved gate region; other site 617121005029 putative PBP binding loops; other site 617121005030 ABC-ATPase subunit interface; other site 617121005031 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 617121005032 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 617121005033 substrate binding pocket [chemical binding]; other site 617121005034 membrane-bound complex binding site; other site 617121005035 hinge residues; other site 617121005036 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 617121005037 DEAD-like helicases superfamily; Region: DEXDc; smart00487 617121005038 ATP binding site [chemical binding]; other site 617121005039 Mg++ binding site [ion binding]; other site 617121005040 motif III; other site 617121005041 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 617121005042 nucleotide binding region [chemical binding]; other site 617121005043 ATP-binding site [chemical binding]; other site 617121005044 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 617121005045 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 617121005046 Mg++ binding site [ion binding]; other site 617121005047 putative catalytic motif [active] 617121005048 putative substrate binding site [chemical binding]; other site 617121005049 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 617121005050 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 617121005051 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 617121005052 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 617121005053 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 617121005054 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 617121005055 similar to S-adenosyl-methyl transferase mraW [Streptococcus pyogenes MGAS10750] 617121005056 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 617121005057 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 617121005058 putative catalytic cysteine [active] 617121005059 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 617121005060 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 617121005061 nucleotide binding site [chemical binding]; other site 617121005062 homotetrameric interface [polypeptide binding]; other site 617121005063 putative phosphate binding site [ion binding]; other site 617121005064 putative allosteric binding site; other site 617121005065 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 617121005066 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 617121005067 Walker A/P-loop; other site 617121005068 ATP binding site [chemical binding]; other site 617121005069 Q-loop/lid; other site 617121005070 ABC transporter signature motif; other site 617121005071 Walker B; other site 617121005072 D-loop; other site 617121005073 H-loop/switch region; other site 617121005074 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 617121005075 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 617121005076 TPP-binding site [chemical binding]; other site 617121005077 dimer interface [polypeptide binding]; other site 617121005078 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 617121005079 PYR/PP interface [polypeptide binding]; other site 617121005080 dimer interface [polypeptide binding]; other site 617121005081 TPP binding site [chemical binding]; other site 617121005082 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 617121005083 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 617121005084 intersubunit interactions; other site 617121005085 active site 617121005086 catalytic residue [active] 617121005087 Mga helix-turn-helix domain; Region: Mga; pfam05043 617121005088 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 617121005089 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 617121005090 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 617121005091 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 617121005092 amphipathic channel; other site 617121005093 Asn-Pro-Ala signature motifs; other site 617121005094 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 617121005095 glycerol kinase; Provisional; Region: glpK; PRK00047 617121005096 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 617121005097 N- and C-terminal domain interface [polypeptide binding]; other site 617121005098 active site 617121005099 MgATP binding site [chemical binding]; other site 617121005100 catalytic site [active] 617121005101 metal binding site [ion binding]; metal-binding site 617121005102 glycerol binding site [chemical binding]; other site 617121005103 homotetramer interface [polypeptide binding]; other site 617121005104 homodimer interface [polypeptide binding]; other site 617121005105 FBP binding site [chemical binding]; other site 617121005106 protein IIAGlc interface [polypeptide binding]; other site 617121005107 Predicted membrane protein [Function unknown]; Region: COG3212 617121005108 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 617121005109 potential frameshift: common BLAST hit: gi|386317596|ref|YP_006013760.1| glycyl-tRNA synthetase subunit beta 617121005110 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 617121005111 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 617121005112 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 617121005113 dimer interface [polypeptide binding]; other site 617121005114 motif 1; other site 617121005115 active site 617121005116 motif 2; other site 617121005117 motif 3; other site 617121005118 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 617121005119 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 617121005120 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 617121005121 active site 617121005122 catalytic tetrad [active] 617121005123 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 617121005124 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 617121005125 active site 617121005126 dimer interface [polypeptide binding]; other site 617121005127 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 617121005128 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 617121005129 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 617121005130 PhoU domain; Region: PhoU; pfam01895 617121005131 PhoU domain; Region: PhoU; pfam01895 617121005132 valyl-tRNA synthetase; Provisional; Region: valS; PRK14900 617121005133 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 617121005134 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 617121005135 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 617121005136 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 617121005137 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 617121005138 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 617121005139 active site 617121005140 motif I; other site 617121005141 motif II; other site 617121005142 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 617121005143 Predicted membrane protein [Function unknown]; Region: COG2860 617121005144 UPF0126 domain; Region: UPF0126; pfam03458 617121005145 UPF0126 domain; Region: UPF0126; pfam03458 617121005146 potential frameshift: common BLAST hit: gi|386317607|ref|YP_006013771.1| tagatose 1,6-diphosphate aldolase 617121005147 Class I aldolases; Region: Aldolase_Class_I; cl17187 617121005148 Class I aldolases; Region: Aldolase_Class_I; cl17187 617121005149 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 617121005150 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 617121005151 putative substrate binding site [chemical binding]; other site 617121005152 putative ATP binding site [chemical binding]; other site 617121005153 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 617121005154 galactose-6-phosphate isomerase subunit LacA; Provisional; Region: PRK12613 617121005155 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 617121005156 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 617121005157 Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]; Region: SgaB; COG3414 617121005158 active site 617121005159 P-loop; other site 617121005160 phosphorylation site [posttranslational modification] 617121005161 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 617121005162 active site 617121005163 phosphorylation site [posttranslational modification] 617121005164 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 617121005165 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 617121005166 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 617121005167 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 617121005168 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 617121005169 metal-binding site [ion binding] 617121005170 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 617121005171 Soluble P-type ATPase [General function prediction only]; Region: COG4087 617121005172 Predicted transcriptional regulator [Transcription]; Region: COG3682 617121005173 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 617121005174 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121005175 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 617121005176 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 617121005177 catalytic site [active] 617121005178 Transposase, Mutator family; Region: Transposase_mut; pfam00872 617121005179 MULE transposase domain; Region: MULE; pfam10551 617121005180 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 617121005181 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 617121005182 active site 617121005183 catalytic site [active] 617121005184 T surface-antigen of pili; Region: FctA; pfam12892 617121005185 sortase B signal domain, QVPTGV class; Region: srtB_sig_QVPTGV; TIGR03065 617121005186 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 617121005187 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 617121005188 Catalytic site [active] 617121005189 Cna protein B-type domain; Region: Cna_B; pfam05738 617121005190 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 617121005191 TQXA domain; Region: TQXA_dom; TIGR03934 617121005192 YSIRK-targeted surface antigen transcriptional regulator; Region: adjacent_YSIRK; TIGR04094 617121005193 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 617121005194 HTH-like domain; Region: HTH_21; pfam13276 617121005195 Integrase core domain; Region: rve; pfam00665 617121005196 Integrase core domain; Region: rve_3; pfam13683 617121005197 Transposase; Region: HTH_Tnp_1; pfam01527 617121005198 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 617121005199 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 617121005200 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 617121005201 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 617121005202 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 617121005203 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 617121005204 translation initiation factor IF-2; Region: IF-2; TIGR00487 617121005205 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 617121005206 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 617121005207 G1 box; other site 617121005208 putative GEF interaction site [polypeptide binding]; other site 617121005209 GTP/Mg2+ binding site [chemical binding]; other site 617121005210 Switch I region; other site 617121005211 G2 box; other site 617121005212 G3 box; other site 617121005213 Switch II region; other site 617121005214 G4 box; other site 617121005215 G5 box; other site 617121005216 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 617121005217 Translation-initiation factor 2; Region: IF-2; pfam11987 617121005218 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 617121005219 hypothetical protein; Provisional; Region: PRK07283 617121005220 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 617121005221 putative RNA binding cleft [nucleotide binding]; other site 617121005222 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 617121005223 NusA N-terminal domain; Region: NusA_N; pfam08529 617121005224 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 617121005225 RNA binding site [nucleotide binding]; other site 617121005226 homodimer interface [polypeptide binding]; other site 617121005227 NusA-like KH domain; Region: KH_5; pfam13184 617121005228 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 617121005229 G-X-X-G motif; other site 617121005230 ribosome maturation protein RimP; Reviewed; Region: PRK00092 617121005231 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 617121005232 putative oligomer interface [polypeptide binding]; other site 617121005233 putative RNA binding site [nucleotide binding]; other site 617121005234 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 617121005235 S-adenosylmethionine binding site [chemical binding]; other site 617121005236 Thiamine kinase and related kinases [Coenzyme transport and metabolism]; Region: ycfN; COG0510 617121005237 Phosphotransferase enzyme family; Region: APH; pfam01636 617121005238 substrate binding site [chemical binding]; other site 617121005239 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 617121005240 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 617121005241 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 617121005242 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 617121005243 Walker A/P-loop; other site 617121005244 ATP binding site [chemical binding]; other site 617121005245 Q-loop/lid; other site 617121005246 ABC transporter signature motif; other site 617121005247 Walker B; other site 617121005248 D-loop; other site 617121005249 H-loop/switch region; other site 617121005250 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 617121005251 HIT family signature motif; other site 617121005252 catalytic residue [active] 617121005253 Transcriptional regulator [Transcription]; Region: LytR; COG1316 617121005254 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 617121005255 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 617121005256 Coenzyme A binding pocket [chemical binding]; other site 617121005257 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 617121005258 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 617121005259 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 617121005260 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 617121005261 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 617121005262 active site 617121005263 motif I; other site 617121005264 motif II; other site 617121005265 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 617121005266 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 617121005267 active pocket/dimerization site; other site 617121005268 active site 617121005269 phosphorylation site [posttranslational modification] 617121005270 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 617121005271 active site 617121005272 phosphorylation site [posttranslational modification] 617121005273 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 617121005274 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 617121005275 Domain of unknown function (DUF956); Region: DUF956; pfam06115 617121005276 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 617121005277 Acyltransferase family; Region: Acyl_transf_3; pfam01757 617121005278 seryl-tRNA synthetase; Provisional; Region: PRK05431 617121005279 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 617121005280 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 617121005281 dimer interface [polypeptide binding]; other site 617121005282 active site 617121005283 motif 1; other site 617121005284 motif 2; other site 617121005285 motif 3; other site 617121005286 acetyl-CoA carboxylase subunit alpha; Provisional; Region: PRK12319 617121005287 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 617121005288 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 617121005289 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 617121005290 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 617121005291 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 617121005292 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 617121005293 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 617121005294 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 617121005295 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 617121005296 carboxyltransferase (CT) interaction site; other site 617121005297 biotinylation site [posttranslational modification]; other site 617121005298 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 617121005299 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 617121005300 dimer interface [polypeptide binding]; other site 617121005301 active site 617121005302 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 617121005303 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 617121005304 NAD(P) binding site [chemical binding]; other site 617121005305 active site 617121005306 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 617121005307 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 617121005308 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 617121005309 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 617121005310 FMN binding site [chemical binding]; other site 617121005311 substrate binding site [chemical binding]; other site 617121005312 putative catalytic residue [active] 617121005313 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 617121005314 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 617121005315 dimer interface [polypeptide binding]; other site 617121005316 active site 617121005317 CoA binding pocket [chemical binding]; other site 617121005318 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 617121005319 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 617121005320 putative Zn2+ binding site [ion binding]; other site 617121005321 putative DNA binding site [nucleotide binding]; other site 617121005322 enoyl-CoA hydratase; Provisional; Region: PRK07260 617121005323 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 617121005324 substrate binding site [chemical binding]; other site 617121005325 oxyanion hole (OAH) forming residues; other site 617121005326 trimer interface [polypeptide binding]; other site 617121005327 chaperone protein DnaJ; Provisional; Region: PRK14276 617121005328 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 617121005329 HSP70 interaction site [polypeptide binding]; other site 617121005330 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 617121005331 substrate binding site [polypeptide binding]; other site 617121005332 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 617121005333 Zn binding sites [ion binding]; other site 617121005334 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 617121005335 dimer interface [polypeptide binding]; other site 617121005336 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 617121005337 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 617121005338 conserved cys residue [active] 617121005339 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 617121005340 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 617121005341 nucleotide binding site [chemical binding]; other site 617121005342 NEF interaction site [polypeptide binding]; other site 617121005343 SBD interface [polypeptide binding]; other site 617121005344 GrpE; Region: GrpE; pfam01025 617121005345 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 617121005346 dimer interface [polypeptide binding]; other site 617121005347 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 617121005348 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 617121005349 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 617121005350 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 617121005351 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 617121005352 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 617121005353 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 617121005354 catalytic core [active] 617121005355 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 617121005356 EamA-like transporter family; Region: EamA; cl17759 617121005357 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 617121005358 EamA-like transporter family; Region: EamA; pfam00892 617121005359 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 617121005360 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 617121005361 GatB domain; Region: GatB_Yqey; pfam02637 617121005362 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 617121005363 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 617121005364 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 617121005365 pyruvate phosphate dikinase; Provisional; Region: PRK09279 617121005366 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 617121005367 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 617121005368 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 617121005369 PEP synthetase regulatory protein; Provisional; Region: PRK05339 617121005370 FOG: CBS domain [General function prediction only]; Region: COG0517 617121005371 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 617121005372 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 617121005373 active site residue [active] 617121005374 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 617121005375 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 617121005376 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 617121005377 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 617121005378 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 617121005379 active site residue [active] 617121005380 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 617121005381 active site residue [active] 617121005382 Isochorismatase family; Region: Isochorismatase; pfam00857 617121005383 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 617121005384 catalytic triad [active] 617121005385 conserved cis-peptide bond; other site 617121005386 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 617121005387 CodY GAF-like domain; Region: CodY; pfam06018 617121005388 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 617121005389 dimerization interface [polypeptide binding]; other site 617121005390 putative Zn2+ binding site [ion binding]; other site 617121005391 putative DNA binding site [nucleotide binding]; other site 617121005392 aminotransferase AlaT; Validated; Region: PRK09265 617121005393 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 617121005394 pyridoxal 5'-phosphate binding site [chemical binding]; other site 617121005395 homodimer interface [polypeptide binding]; other site 617121005396 catalytic residue [active] 617121005397 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 617121005398 Ligand Binding Site [chemical binding]; other site 617121005399 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 617121005400 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 617121005401 active site 617121005402 motif I; other site 617121005403 motif II; other site 617121005404 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 617121005405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4696 617121005406 metal binding site [ion binding]; metal-binding site 617121005407 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 617121005408 active site 617121005409 homotetramer interface [polypeptide binding]; other site 617121005410 homodimer interface [polypeptide binding]; other site 617121005411 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 617121005412 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 617121005413 active site 617121005414 catalytic tetrad [active] 617121005415 similar to ATP-dependent DNA helicase Recg [Streptococcus equi subsp. zooepidemicus MGCS10565] 617121005416 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 617121005417 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 617121005418 Walker A/P-loop; other site 617121005419 ATP binding site [chemical binding]; other site 617121005420 Q-loop/lid; other site 617121005421 ABC transporter signature motif; other site 617121005422 Walker B; other site 617121005423 D-loop; other site 617121005424 H-loop/switch region; other site 617121005425 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121005426 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 617121005427 Walker A/P-loop; other site 617121005428 ATP binding site [chemical binding]; other site 617121005429 Q-loop/lid; other site 617121005430 ABC transporter signature motif; other site 617121005431 Walker B; other site 617121005432 D-loop; other site 617121005433 H-loop/switch region; other site 617121005434 Cobalt transport protein; Region: CbiQ; cl00463 617121005435 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 617121005436 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121005437 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121005438 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 617121005439 Walker A/P-loop; other site 617121005440 ATP binding site [chemical binding]; other site 617121005441 Q-loop/lid; other site 617121005442 ABC transporter signature motif; other site 617121005443 Walker B; other site 617121005444 D-loop; other site 617121005445 H-loop/switch region; other site 617121005446 potential frameshift: common BLAST hit: gi|251783250|ref|YP_002997555.1| ABC transporter ATP-binding protein 617121005447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121005448 ABC transporter signature motif; other site 617121005449 Walker B; other site 617121005450 D-loop; other site 617121005451 H-loop/switch region; other site 617121005452 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 617121005453 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121005454 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 617121005455 Walker A/P-loop; other site 617121005456 ATP binding site [chemical binding]; other site 617121005457 Q-loop/lid; other site 617121005458 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 617121005459 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 617121005460 Walker A/P-loop; other site 617121005461 ATP binding site [chemical binding]; other site 617121005462 Q-loop/lid; other site 617121005463 ABC transporter signature motif; other site 617121005464 Walker B; other site 617121005465 D-loop; other site 617121005466 H-loop/switch region; other site 617121005467 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 617121005468 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 617121005469 ABC-ATPase subunit interface; other site 617121005470 dimer interface [polypeptide binding]; other site 617121005471 putative PBP binding regions; other site 617121005472 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 617121005473 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 617121005474 putative ligand binding residues [chemical binding]; other site 617121005475 Cell surface heme-binding protein Shp; Region: HemeBinding_Shp; pfam11545 617121005476 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 617121005477 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 617121005478 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 617121005479 heme-binding site [chemical binding]; other site 617121005480 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 617121005481 Leucine-rich repeats; other site 617121005482 Leucine rich repeat; Region: LRR_8; pfam13855 617121005483 Substrate binding site [chemical binding]; other site 617121005484 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 617121005485 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 617121005486 heme-binding site [chemical binding]; other site 617121005487 Surface antigen [General function prediction only]; Region: COG3942 617121005488 CHAP domain; Region: CHAP; pfam05257 617121005489 alanine racemase; Reviewed; Region: alr; PRK00053 617121005490 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 617121005491 active site 617121005492 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 617121005493 dimer interface [polypeptide binding]; other site 617121005494 substrate binding site [chemical binding]; other site 617121005495 catalytic residues [active] 617121005496 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 617121005497 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 617121005498 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 617121005499 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 617121005500 nucleotide binding region [chemical binding]; other site 617121005501 ATP-binding site [chemical binding]; other site 617121005502 SEC-C motif; Region: SEC-C; pfam02810 617121005503 similar to transposase [Streptococcus pyogenes MGAS10394] 617121005504 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 617121005505 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 617121005506 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 617121005507 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 617121005508 nucleotide binding site [chemical binding]; other site 617121005509 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 617121005510 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 617121005511 active site turn [active] 617121005512 phosphorylation site [posttranslational modification] 617121005513 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 617121005514 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 617121005515 HPr interaction site; other site 617121005516 glycerol kinase (GK) interaction site [polypeptide binding]; other site 617121005517 active site 617121005518 phosphorylation site [posttranslational modification] 617121005519 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 617121005520 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 617121005521 substrate binding [chemical binding]; other site 617121005522 active site 617121005523 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 617121005524 Transcriptional regulators [Transcription]; Region: PurR; COG1609 617121005525 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 617121005526 DNA binding site [nucleotide binding] 617121005527 domain linker motif; other site 617121005528 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 617121005529 dimerization interface [polypeptide binding]; other site 617121005530 ligand binding site [chemical binding]; other site 617121005531 sodium binding site [ion binding]; other site 617121005532 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 617121005533 putative RNA binding site [nucleotide binding]; other site 617121005534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 617121005535 elongation factor P; Validated; Region: PRK00529 617121005536 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 617121005537 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 617121005538 RNA binding site [nucleotide binding]; other site 617121005539 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 617121005540 RNA binding site [nucleotide binding]; other site 617121005541 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 617121005542 catalytic motif [active] 617121005543 Zn binding site [ion binding]; other site 617121005544 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 617121005545 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 617121005546 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 617121005547 active site 617121005548 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 617121005549 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 617121005550 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 617121005551 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 617121005552 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 617121005553 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 617121005554 Cl binding site [ion binding]; other site 617121005555 oligomer interface [polypeptide binding]; other site 617121005556 Uncharacterized membrane-bound protein conserved in bacteria [Function unknown]; Region: COG4858 617121005557 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 617121005558 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 617121005559 dimer interface [polypeptide binding]; other site 617121005560 ssDNA binding site [nucleotide binding]; other site 617121005561 tetramer (dimer of dimers) interface [polypeptide binding]; other site 617121005562 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 617121005563 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 617121005564 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 617121005565 minor groove reading motif; other site 617121005566 helix-hairpin-helix signature motif; other site 617121005567 substrate binding pocket [chemical binding]; other site 617121005568 active site 617121005569 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 617121005570 DNA binding and oxoG recognition site [nucleotide binding] 617121005571 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 617121005572 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 617121005573 catalytic residues [active] 617121005574 potential frameshift: common BLAST hit: gi|251783279|ref|YP_002997584.1| pyridine nucleotide-disulfide oxidoreductase 617121005575 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 617121005576 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 617121005577 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 617121005578 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 617121005579 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 617121005580 MutS domain III; Region: MutS_III; pfam05192 617121005581 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 617121005582 Walker A/P-loop; other site 617121005583 ATP binding site [chemical binding]; other site 617121005584 Q-loop/lid; other site 617121005585 ABC transporter signature motif; other site 617121005586 Walker B; other site 617121005587 D-loop; other site 617121005588 H-loop/switch region; other site 617121005589 Smr domain; Region: Smr; pfam01713 617121005590 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 617121005591 Colicin V production protein; Region: Colicin_V; pfam02674 617121005592 ribonuclease HIII; Provisional; Region: PRK00996 617121005593 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 617121005594 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 617121005595 RNA/DNA hybrid binding site [nucleotide binding]; other site 617121005596 active site 617121005597 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 617121005598 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 617121005599 Catalytic site [active] 617121005600 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 617121005601 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 617121005602 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 617121005603 DNA binding site [nucleotide binding] 617121005604 AAA domain; Region: AAA_30; pfam13604 617121005605 Family description; Region: UvrD_C_2; pfam13538 617121005606 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 617121005607 active site 617121005608 DNA polymerase IV; Validated; Region: PRK02406 617121005609 DNA binding site [nucleotide binding] 617121005610 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 617121005611 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 617121005612 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 617121005613 Coenzyme A binding pocket [chemical binding]; other site 617121005614 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 617121005615 homodimer interface [polypeptide binding]; other site 617121005616 maltodextrin glucosidase; Provisional; Region: PRK10785 617121005617 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 617121005618 active site 617121005619 homodimer interface [polypeptide binding]; other site 617121005620 catalytic site [active] 617121005621 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 617121005622 Protein of unknown function, DUF624; Region: DUF624; cl02369 617121005623 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 617121005624 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 617121005625 dimer interface [polypeptide binding]; other site 617121005626 ABC-ATPase subunit interface; other site 617121005627 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 617121005628 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 617121005629 dimer interface [polypeptide binding]; other site 617121005630 conserved gate region; other site 617121005631 ABC-ATPase subunit interface; other site 617121005632 Transcriptional regulators [Transcription]; Region: PurR; COG1609 617121005633 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 617121005634 DNA binding site [nucleotide binding] 617121005635 domain linker motif; other site 617121005636 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 617121005637 dimerization interface [polypeptide binding]; other site 617121005638 ligand binding site [chemical binding]; other site 617121005639 Beta-lactamase; Region: Beta-lactamase; pfam00144 617121005640 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 617121005641 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 617121005642 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 617121005643 active site 617121005644 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 617121005645 amphipathic channel; other site 617121005646 Asn-Pro-Ala signature motifs; other site 617121005647 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 617121005648 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; pfam09168 617121005649 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 617121005650 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 617121005651 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 617121005652 non-specific DNA binding site [nucleotide binding]; other site 617121005653 salt bridge; other site 617121005654 sequence-specific DNA binding site [nucleotide binding]; other site 617121005655 DNA binding domain of tn916 integrase; Region: Integrase_DNA; pfam02920 617121005656 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 617121005657 active site 617121005658 DNA binding site [nucleotide binding] 617121005659 Int/Topo IB signature motif; other site 617121005660 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 617121005661 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 617121005662 DNA binding residues [nucleotide binding] 617121005663 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 617121005664 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 617121005665 Walker A/P-loop; other site 617121005666 ATP binding site [chemical binding]; other site 617121005667 Q-loop/lid; other site 617121005668 ABC transporter signature motif; other site 617121005669 Walker B; other site 617121005670 D-loop; other site 617121005671 H-loop/switch region; other site 617121005672 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121005673 Walker A/P-loop; other site 617121005674 ATP binding site [chemical binding]; other site 617121005675 Q-loop/lid; other site 617121005676 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 617121005677 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 617121005678 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121005679 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121005680 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121005681 Walker A/P-loop; other site 617121005682 ATP binding site [chemical binding]; other site 617121005683 Q-loop/lid; other site 617121005684 ABC transporter signature motif; other site 617121005685 Walker B; other site 617121005686 D-loop; other site 617121005687 H-loop/switch region; other site 617121005688 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121005689 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121005690 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121005691 Walker A/P-loop; other site 617121005692 ATP binding site [chemical binding]; other site 617121005693 Q-loop/lid; other site 617121005694 ABC transporter signature motif; other site 617121005695 Walker B; other site 617121005696 D-loop; other site 617121005697 H-loop/switch region; other site 617121005698 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 617121005699 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 617121005700 Plasmid replication protein; Region: Rep_2; pfam01719 617121005701 integrase; Provisional; Region: int; PHA02601 617121005702 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 617121005703 Int/Topo IB signature motif; other site 617121005704 hypothetical protein; Validated; Region: PRK00153 617121005705 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 617121005706 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 617121005707 DNA binding residues [nucleotide binding] 617121005708 dimer interface [polypeptide binding]; other site 617121005709 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 617121005710 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 617121005711 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 617121005712 active site 617121005713 catalytic site [active] 617121005714 substrate binding site [chemical binding]; other site 617121005715 HTH domain; Region: HTH_11; cl17392 617121005716 HI0933-like protein; Region: HI0933_like; pfam03486 617121005717 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 617121005718 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 617121005719 UGMP family protein; Validated; Region: PRK09604 617121005720 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 617121005721 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 617121005722 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 617121005723 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 617121005724 Coenzyme A binding pocket [chemical binding]; other site 617121005725 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 617121005726 Glycoprotease family; Region: Peptidase_M22; pfam00814 617121005727 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 617121005728 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 617121005729 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 617121005730 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 617121005731 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 617121005732 Walker A/P-loop; other site 617121005733 ATP binding site [chemical binding]; other site 617121005734 Q-loop/lid; other site 617121005735 ABC transporter signature motif; other site 617121005736 Walker B; other site 617121005737 D-loop; other site 617121005738 H-loop/switch region; other site 617121005739 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 617121005740 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 617121005741 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 617121005742 Walker A/P-loop; other site 617121005743 ATP binding site [chemical binding]; other site 617121005744 Q-loop/lid; other site 617121005745 ABC transporter signature motif; other site 617121005746 Walker B; other site 617121005747 D-loop; other site 617121005748 H-loop/switch region; other site 617121005749 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 617121005750 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 617121005751 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 617121005752 dimer interface [polypeptide binding]; other site 617121005753 conserved gate region; other site 617121005754 putative PBP binding loops; other site 617121005755 ABC-ATPase subunit interface; other site 617121005756 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 617121005757 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 617121005758 dimer interface [polypeptide binding]; other site 617121005759 conserved gate region; other site 617121005760 putative PBP binding loops; other site 617121005761 ABC-ATPase subunit interface; other site 617121005762 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 617121005763 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 617121005764 peptide binding site [polypeptide binding]; other site 617121005765 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 617121005766 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 617121005767 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 617121005768 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 617121005769 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 617121005770 DNA binding residues [nucleotide binding] 617121005771 putative dimer interface [polypeptide binding]; other site 617121005772 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 617121005773 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 617121005774 Phosphoglycerate kinase; Region: PGK; pfam00162 617121005775 substrate binding site [chemical binding]; other site 617121005776 hinge regions; other site 617121005777 ADP binding site [chemical binding]; other site 617121005778 catalytic site [active] 617121005779 5'-nucleotidase, lipoprotein e(P4) family; Region: lipo_e_P4; TIGR01533 617121005780 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 617121005781 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 617121005782 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 617121005783 elongation factor G; Reviewed; Region: PRK00007 617121005784 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 617121005785 G1 box; other site 617121005786 putative GEF interaction site [polypeptide binding]; other site 617121005787 GTP/Mg2+ binding site [chemical binding]; other site 617121005788 Switch I region; other site 617121005789 G2 box; other site 617121005790 G3 box; other site 617121005791 Switch II region; other site 617121005792 G4 box; other site 617121005793 G5 box; other site 617121005794 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 617121005795 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 617121005796 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 617121005797 30S ribosomal protein S7; Validated; Region: PRK05302 617121005798 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 617121005799 S17 interaction site [polypeptide binding]; other site 617121005800 S8 interaction site; other site 617121005801 16S rRNA interaction site [nucleotide binding]; other site 617121005802 streptomycin interaction site [chemical binding]; other site 617121005803 23S rRNA interaction site [nucleotide binding]; other site 617121005804 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 617121005805 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 617121005806 pur operon repressor; Provisional; Region: PRK09213 617121005807 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 617121005808 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 617121005809 active site 617121005810 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 617121005811 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 617121005812 generic binding surface II; other site 617121005813 generic binding surface I; other site 617121005814 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 617121005815 Zn2+ binding site [ion binding]; other site 617121005816 Mg2+ binding site [ion binding]; other site 617121005817 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 617121005818 RmuC family; Region: RmuC; pfam02646 617121005819 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 617121005820 Thiamine pyrophosphokinase; Region: TPK; cd07995 617121005821 active site 617121005822 dimerization interface [polypeptide binding]; other site 617121005823 thiamine binding site [chemical binding]; other site 617121005824 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 617121005825 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 617121005826 substrate binding site [chemical binding]; other site 617121005827 hexamer interface [polypeptide binding]; other site 617121005828 metal binding site [ion binding]; metal-binding site 617121005829 GTPase RsgA; Reviewed; Region: PRK00098 617121005830 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 617121005831 RNA binding site [nucleotide binding]; other site 617121005832 homodimer interface [polypeptide binding]; other site 617121005833 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 617121005834 GTPase/Zn-binding domain interface [polypeptide binding]; other site 617121005835 GTP/Mg2+ binding site [chemical binding]; other site 617121005836 G4 box; other site 617121005837 G1 box; other site 617121005838 Switch I region; other site 617121005839 G2 box; other site 617121005840 G3 box; other site 617121005841 Switch II region; other site 617121005842 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 617121005843 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 617121005844 S-adenosylmethionine binding site [chemical binding]; other site 617121005845 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 617121005846 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 617121005847 putative active site [active] 617121005848 putative metal binding site [ion binding]; other site 617121005849 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 617121005850 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 617121005851 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 617121005852 active site 617121005853 Isochorismatase family; Region: Isochorismatase; pfam00857 617121005854 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 617121005855 catalytic triad [active] 617121005856 conserved cis-peptide bond; other site 617121005857 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 617121005858 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 617121005859 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 617121005860 putative active site [active] 617121005861 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 617121005862 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 617121005863 nucleotide binding site [chemical binding]; other site 617121005864 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 617121005865 Class I aldolases; Region: Aldolase_Class_I; cl17187 617121005866 catalytic residue [active] 617121005867 Protein of unknown function, DUF624; Region: DUF624; pfam04854 617121005868 Domain of unknown function (DUF386); Region: DUF386; cl01047 617121005869 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 617121005870 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 617121005871 dimer interface [polypeptide binding]; other site 617121005872 conserved gate region; other site 617121005873 putative PBP binding loops; other site 617121005874 ABC-ATPase subunit interface; other site 617121005875 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 617121005876 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 617121005877 dimer interface [polypeptide binding]; other site 617121005878 ABC-ATPase subunit interface; other site 617121005879 putative PBP binding loops; other site 617121005880 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 617121005881 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 617121005882 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 617121005883 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 617121005884 putative active site cavity [active] 617121005885 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 617121005886 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 617121005887 G-X-X-G motif; other site 617121005888 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 617121005889 RxxxH motif; other site 617121005890 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 617121005891 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 617121005892 ribonuclease P; Reviewed; Region: rnpA; PRK00499 617121005893 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 617121005894 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 617121005895 active site 617121005896 phosphorylation site [posttranslational modification] 617121005897 intermolecular recognition site; other site 617121005898 dimerization interface [polypeptide binding]; other site 617121005899 LytTr DNA-binding domain; Region: LytTR; pfam04397 617121005900 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 617121005901 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 617121005902 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 617121005903 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 617121005904 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 617121005905 active site 617121005906 HIGH motif; other site 617121005907 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 617121005908 active site 617121005909 KMSKS motif; other site 617121005910 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 617121005911 H+ Antiporter protein; Region: 2A0121; TIGR00900 617121005912 LytTr DNA-binding domain; Region: LytTR; smart00850 617121005913 Uncharacterized conserved protein [Function unknown]; Region: COG2013 617121005914 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 617121005915 active site clefts [active] 617121005916 zinc binding site [ion binding]; other site 617121005917 dimer interface [polypeptide binding]; other site 617121005918 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 617121005919 DNA repair protein RadA; Provisional; Region: PRK11823 617121005920 Walker A motif/ATP binding site; other site 617121005921 ATP binding site [chemical binding]; other site 617121005922 Walker B motif; other site 617121005923 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 617121005924 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 617121005925 trimer interface [polypeptide binding]; other site 617121005926 active site 617121005927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 617121005928 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121005929 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121005930 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 617121005931 Walker A/P-loop; other site 617121005932 ATP binding site [chemical binding]; other site 617121005933 Q-loop/lid; other site 617121005934 ABC transporter signature motif; other site 617121005935 Walker B; other site 617121005936 D-loop; other site 617121005937 H-loop/switch region; other site 617121005938 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121005939 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121005940 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121005941 Walker A/P-loop; other site 617121005942 ATP binding site [chemical binding]; other site 617121005943 Q-loop/lid; other site 617121005944 ABC transporter signature motif; other site 617121005945 Walker B; other site 617121005946 D-loop; other site 617121005947 H-loop/switch region; other site 617121005948 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 617121005949 MarR family; Region: MarR_2; pfam12802 617121005950 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 617121005951 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 617121005952 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 617121005953 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 617121005954 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 617121005955 active site 617121005956 tetramer interface; other site 617121005957 Predicted membrane protein [Function unknown]; Region: COG2364 617121005958 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 617121005959 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 617121005960 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 617121005961 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 617121005962 TQXA domain; Region: TQXA_dom; TIGR03934 617121005963 Fibronectin binding repeat; Region: Fn_bind; pfam02986 617121005964 Fibronectin binding repeat; Region: Fn_bind; pfam02986 617121005965 Fibronectin binding repeat; Region: Fn_bind; pfam02986 617121005966 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 617121005967 similar to transcriptional regulator [Streptococcus pyogenes MGAS10270]; truncated transcriptional regulator 617121005968 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 617121005969 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121005970 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 617121005971 similar to transposase [Streptococcus pyogenes MGAS10394] 617121005972 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 617121005973 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 617121005974 active site 617121005975 dimer interface [polypeptide binding]; other site 617121005976 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 617121005977 dimer interface [polypeptide binding]; other site 617121005978 active site 617121005979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 617121005980 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 617121005981 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 617121005982 catalytic residues [active] 617121005983 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 617121005984 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 617121005985 dimer interface [polypeptide binding]; other site 617121005986 PYR/PP interface [polypeptide binding]; other site 617121005987 TPP binding site [chemical binding]; other site 617121005988 substrate binding site [chemical binding]; other site 617121005989 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 617121005990 Domain of unknown function; Region: EKR; cl11037 617121005991 4Fe-4S binding domain; Region: Fer4; pfam00037 617121005992 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 617121005993 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 617121005994 TPP-binding site [chemical binding]; other site 617121005995 dimer interface [polypeptide binding]; other site 617121005996 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 617121005997 Propanediol utilisation protein PduL; Region: PduL; pfam06130 617121005998 Propanediol utilisation protein PduL; Region: PduL; pfam06130 617121005999 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 617121006000 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 617121006001 putative catalytic cysteine [active] 617121006002 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 617121006003 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 617121006004 Hexamer interface [polypeptide binding]; other site 617121006005 Hexagonal pore residue; other site 617121006006 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 617121006007 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 617121006008 Hexamer/Pentamer interface [polypeptide binding]; other site 617121006009 central pore; other site 617121006010 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 617121006011 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 617121006012 nucleotide binding site [chemical binding]; other site 617121006013 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 617121006014 nucleotide binding site [chemical binding]; other site 617121006015 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 617121006016 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 617121006017 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 617121006018 putative active site [active] 617121006019 metal binding site [ion binding]; metal-binding site 617121006020 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 617121006021 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 617121006022 putative hexamer interface [polypeptide binding]; other site 617121006023 putative hexagonal pore; other site 617121006024 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 617121006025 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 617121006026 FeS/SAM binding site; other site 617121006027 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 617121006028 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 617121006029 dimer interface [polypeptide binding]; other site 617121006030 active site 617121006031 glycine loop; other site 617121006032 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 617121006033 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 617121006034 NAD(P) binding site [chemical binding]; other site 617121006035 catalytic residues [active] 617121006036 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 617121006037 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 617121006038 Hexamer interface [polypeptide binding]; other site 617121006039 Hexagonal pore residue; other site 617121006040 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 617121006041 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 617121006042 Hexamer interface [polypeptide binding]; other site 617121006043 Hexagonal pore residue; other site 617121006044 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 617121006045 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 617121006046 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 617121006047 Hexamer interface [polypeptide binding]; other site 617121006048 Putative hexagonal pore residue; other site 617121006049 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 617121006050 DNA binding residues [nucleotide binding] 617121006051 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 617121006052 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 617121006053 Uncharacterized protein involved in cytokinesis, contains TGc (transglutaminase/protease-like) domain [Cell division and chromosome partitioning]; Region: CYK3; COG5279 617121006054 Transglutaminase/protease-like homologues; Region: TGc; smart00460 617121006055 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 617121006056 nucleoside/Zn binding site; other site 617121006057 dimer interface [polypeptide binding]; other site 617121006058 catalytic motif [active] 617121006059 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 617121006060 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 617121006061 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 617121006062 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 617121006063 CHY zinc finger; Region: zf-CHY; pfam05495 617121006064 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 617121006065 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 617121006066 Protein of unknown function (DUF975); Region: DUF975; pfam06161 617121006067 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 617121006068 metal binding site 2 [ion binding]; metal-binding site 617121006069 putative DNA binding helix; other site 617121006070 metal binding site 1 [ion binding]; metal-binding site 617121006071 dimer interface [polypeptide binding]; other site 617121006072 structural Zn2+ binding site [ion binding]; other site 617121006073 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 617121006074 DNA polymerase I; Provisional; Region: PRK05755 617121006075 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 617121006076 active site 617121006077 metal binding site 1 [ion binding]; metal-binding site 617121006078 putative 5' ssDNA interaction site; other site 617121006079 metal binding site 3; metal-binding site 617121006080 metal binding site 2 [ion binding]; metal-binding site 617121006081 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 617121006082 putative DNA binding site [nucleotide binding]; other site 617121006083 putative metal binding site [ion binding]; other site 617121006084 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 617121006085 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 617121006086 active site 617121006087 DNA binding site [nucleotide binding] 617121006088 catalytic site [active] 617121006089 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 617121006090 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 617121006091 dimer interface [polypeptide binding]; other site 617121006092 conserved gate region; other site 617121006093 putative PBP binding loops; other site 617121006094 ABC-ATPase subunit interface; other site 617121006095 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 617121006096 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 617121006097 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 617121006098 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 617121006099 Walker A/P-loop; other site 617121006100 ATP binding site [chemical binding]; other site 617121006101 Q-loop/lid; other site 617121006102 ABC transporter signature motif; other site 617121006103 Walker B; other site 617121006104 D-loop; other site 617121006105 H-loop/switch region; other site 617121006106 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 617121006107 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 617121006108 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 617121006109 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 617121006110 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 617121006111 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 617121006112 PRD domain; Region: PRD; pfam00874 617121006113 PRD domain; Region: PRD; pfam00874 617121006114 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 617121006115 active site 617121006116 P-loop; other site 617121006117 phosphorylation site [posttranslational modification] 617121006118 L-ribulose-5-phosphate 4-epimerase; Provisional; Region: araD; PRK13145 617121006119 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 617121006120 intersubunit interface [polypeptide binding]; other site 617121006121 active site 617121006122 Zn2+ binding site [ion binding]; other site 617121006123 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 617121006124 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 617121006125 AP (apurinic/apyrimidinic) site pocket; other site 617121006126 DNA interaction; other site 617121006127 Metal-binding active site; metal-binding site 617121006128 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 617121006129 active site 617121006130 dimer interface [polypeptide binding]; other site 617121006131 magnesium binding site [ion binding]; other site 617121006132 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 617121006133 active site 617121006134 phosphorylation site [posttranslational modification] 617121006135 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 617121006136 active site 617121006137 P-loop; other site 617121006138 phosphorylation site [posttranslational modification] 617121006139 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 617121006140 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 617121006141 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 617121006142 HIGH motif; other site 617121006143 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 617121006144 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 617121006145 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 617121006146 active site 617121006147 KMSKS motif; other site 617121006148 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 617121006149 tRNA binding surface [nucleotide binding]; other site 617121006150 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 617121006151 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 617121006152 Helix-turn-helix domain; Region: HTH_38; pfam13936 617121006153 Integrase core domain; Region: rve; pfam00665 617121006154 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 617121006155 Transposase; Region: HTH_Tnp_1; pfam01527 617121006156 HTH-like domain; Region: HTH_21; pfam13276 617121006157 Integrase core domain; Region: rve; pfam00665 617121006158 Integrase core domain; Region: rve_3; cl15866 617121006159 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 617121006160 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 617121006161 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 617121006162 Walker A/P-loop; other site 617121006163 ATP binding site [chemical binding]; other site 617121006164 Q-loop/lid; other site 617121006165 ABC transporter signature motif; other site 617121006166 Walker B; other site 617121006167 D-loop; other site 617121006168 H-loop/switch region; other site 617121006169 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 617121006170 ATP binding site [chemical binding]; other site 617121006171 substrate interface [chemical binding]; other site 617121006172 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121006173 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 617121006174 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 617121006175 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 617121006176 Nicotine adenine dinucleotide glycohydrolase (NADase); Region: NADase_NGA; pfam07461 617121006177 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 617121006178 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 617121006179 putative homodimer interface [polypeptide binding]; other site 617121006180 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 617121006181 heterodimer interface [polypeptide binding]; other site 617121006182 homodimer interface [polypeptide binding]; other site 617121006183 Transglycosylase; Region: Transgly; pfam00912 617121006184 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 617121006185 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 617121006186 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 617121006187 homotrimer interaction site [polypeptide binding]; other site 617121006188 putative active site [active] 617121006189 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 617121006190 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 617121006191 active site 617121006192 Predicted membrane protein [Function unknown]; Region: COG4640 617121006193 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 617121006194 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 617121006195 putative active site [active] 617121006196 nucleotide binding site [chemical binding]; other site 617121006197 nudix motif; other site 617121006198 putative metal binding site [ion binding]; other site 617121006199 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 617121006200 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 617121006201 ring oligomerisation interface [polypeptide binding]; other site 617121006202 ATP/Mg binding site [chemical binding]; other site 617121006203 stacking interactions; other site 617121006204 hinge regions; other site 617121006205 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 617121006206 oligomerisation interface [polypeptide binding]; other site 617121006207 mobile loop; other site 617121006208 roof hairpin; other site 617121006209 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 617121006210 Clp amino terminal domain; Region: Clp_N; pfam02861 617121006211 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 617121006212 Walker A motif; other site 617121006213 ATP binding site [chemical binding]; other site 617121006214 Walker B motif; other site 617121006215 arginine finger; other site 617121006216 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 617121006217 Walker A motif; other site 617121006218 ATP binding site [chemical binding]; other site 617121006219 Walker B motif; other site 617121006220 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 617121006221 Transcriptional repressor of class III stress genes [Transcription]; Region: CtsR; COG4463 617121006222 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 617121006223 DNA-binding site [nucleotide binding]; DNA binding site 617121006224 RNA-binding motif; other site 617121006225 Amidohydrolase; Region: Amidohydro_2; pfam04909 617121006226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 617121006227 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121006228 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 617121006229 peroxiredoxin; Region: AhpC; TIGR03137 617121006230 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 617121006231 dimer interface [polypeptide binding]; other site 617121006232 decamer (pentamer of dimers) interface [polypeptide binding]; other site 617121006233 catalytic triad [active] 617121006234 peroxidatic and resolving cysteines [active] 617121006235 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 617121006236 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 617121006237 catalytic residue [active] 617121006238 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 617121006239 catalytic residues [active] 617121006240 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 617121006241 imidazolonepropionase; Validated; Region: PRK09356 617121006242 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 617121006243 active site 617121006244 urocanate hydratase; Provisional; Region: PRK05414 617121006245 Glutamate formiminotransferase [Amino acid transport and metabolism]; Region: COG3643 617121006246 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 617121006247 Formiminotransferase domain; Region: FTCD; pfam02971 617121006248 Methenyl tetrahydrofolate cyclohydrolase [Amino acid transport and metabolism]; Region: COG3404 617121006249 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 617121006250 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 617121006251 Potassium binding sites [ion binding]; other site 617121006252 Cesium cation binding sites [ion binding]; other site 617121006253 HutD; Region: HutD; cl01532 617121006254 amino acid transporter; Region: 2A0306; TIGR00909 617121006255 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 617121006256 active sites [active] 617121006257 tetramer interface [polypeptide binding]; other site 617121006258 formimidoylglutamase; Provisional; Region: PRK13775 617121006259 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 617121006260 putative active site [active] 617121006261 putative metal binding site [ion binding]; other site 617121006262 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 617121006263 Predicted ATPase [General function prediction only]; Region: COG3899 617121006264 AAA ATPase domain; Region: AAA_16; pfam13191 617121006265 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 617121006266 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121006267 Transposase [DNA replication, recombination, and repair]; Region: COG5433 617121006268 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 617121006269 rRNA interaction site [nucleotide binding]; other site 617121006270 S8 interaction site; other site 617121006271 putative laminin-1 binding site; other site 617121006272 elongation factor Ts; Provisional; Region: tsf; PRK09377 617121006273 UBA/TS-N domain; Region: UBA; pfam00627 617121006274 Elongation factor TS; Region: EF_TS; pfam00889 617121006275 Elongation factor TS; Region: EF_TS; pfam00889 617121006276 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 617121006277 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 617121006278 active site 617121006279 Zn binding site [ion binding]; other site 617121006280 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 617121006281 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 617121006282 Ca binding site [ion binding]; other site 617121006283 active site 617121006284 catalytic site [active] 617121006285 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 617121006286 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 617121006287 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 617121006288 active site turn [active] 617121006289 phosphorylation site [posttranslational modification] 617121006290 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 617121006291 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 617121006292 HPr interaction site; other site 617121006293 glycerol kinase (GK) interaction site [polypeptide binding]; other site 617121006294 active site 617121006295 phosphorylation site [posttranslational modification] 617121006296 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 617121006297 DNA-binding site [nucleotide binding]; DNA binding site 617121006298 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 617121006299 UTRA domain; Region: UTRA; pfam07702 617121006300 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 617121006301 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 617121006302 putative metal binding site [ion binding]; other site 617121006303 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 617121006304 active site 617121006305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3022 617121006306 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 617121006307 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 617121006308 FeS/SAM binding site; other site 617121006309 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 617121006310 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 617121006311 Coenzyme A binding pocket [chemical binding]; other site 617121006312 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 617121006313 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 617121006314 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 617121006315 ATP cone domain; Region: ATP-cone; pfam03477 617121006316 Class III ribonucleotide reductase; Region: RNR_III; cd01675 617121006317 effector binding site; other site 617121006318 active site 617121006319 Zn binding site [ion binding]; other site 617121006320 glycine loop; other site 617121006321 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 617121006322 hypothetical protein; Provisional; Region: PRK13678 617121006323 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 617121006324 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 617121006325 ArsC family; Region: ArsC; pfam03960 617121006326 putative catalytic residues [active] 617121006327 thiol/disulfide switch; other site 617121006328 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 617121006329 recombinase A; Provisional; Region: recA; PRK09354 617121006330 hexamer interface [polypeptide binding]; other site 617121006331 Walker A motif; other site 617121006332 ATP binding site [chemical binding]; other site 617121006333 Walker B motif; other site 617121006334 competence damage-inducible protein A; Provisional; Region: PRK00549 617121006335 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 617121006336 putative MPT binding site; other site 617121006337 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 617121006338 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 617121006339 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 617121006340 RuvA N terminal domain; Region: RuvA_N; pfam01330 617121006341 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 617121006342 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 617121006343 Major Facilitator Superfamily; Region: MFS_1; pfam07690 617121006344 putative substrate translocation pore; other site 617121006345 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 617121006346 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 617121006347 ATP binding site [chemical binding]; other site 617121006348 Mg2+ binding site [ion binding]; other site 617121006349 G-X-G motif; other site 617121006350 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 617121006351 ATP binding site [chemical binding]; other site 617121006352 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 617121006353 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 617121006354 MutS domain I; Region: MutS_I; pfam01624 617121006355 MutS domain II; Region: MutS_II; pfam05188 617121006356 MutS domain III; Region: MutS_III; pfam05192 617121006357 MutS domain V; Region: MutS_V; pfam00488 617121006358 Walker A/P-loop; other site 617121006359 ATP binding site [chemical binding]; other site 617121006360 Q-loop/lid; other site 617121006361 ABC transporter signature motif; other site 617121006362 Walker B; other site 617121006363 D-loop; other site 617121006364 H-loop/switch region; other site 617121006365 Protein of unknown function (DUF964); Region: DUF964; cl01483 617121006366 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 617121006367 arginine repressor; Region: argR_whole; TIGR01529 617121006368 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 617121006369 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 617121006370 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 617121006371 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 617121006372 active site 617121006373 HIGH motif; other site 617121006374 KMSK motif region; other site 617121006375 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 617121006376 tRNA binding surface [nucleotide binding]; other site 617121006377 anticodon binding site; other site 617121006378 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 617121006379 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 617121006380 ABC transporter; Region: ABC_tran_2; pfam12848 617121006381 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 617121006382 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 617121006383 Uncharacterized conserved protein [Function unknown]; Region: COG1284 617121006384 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 617121006385 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 617121006386 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 617121006387 Uncharacterized conserved protein [Function unknown]; Region: COG1284 617121006388 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 617121006389 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 617121006390 Uncharacterized conserved protein [Function unknown]; Region: COG1284 617121006391 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 617121006392 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 617121006393 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 617121006394 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 617121006395 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 617121006396 dimer interface [polypeptide binding]; other site 617121006397 anticodon binding site; other site 617121006398 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 617121006399 homodimer interface [polypeptide binding]; other site 617121006400 motif 1; other site 617121006401 active site 617121006402 motif 2; other site 617121006403 GAD domain; Region: GAD; pfam02938 617121006404 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 617121006405 motif 3; other site 617121006406 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 617121006407 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 617121006408 dimer interface [polypeptide binding]; other site 617121006409 motif 1; other site 617121006410 active site 617121006411 motif 2; other site 617121006412 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 617121006413 anticodon binding site; other site 617121006414 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 617121006415 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 617121006416 Predicted membrane protein [Function unknown]; Region: COG2035 617121006417 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 617121006418 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 617121006419 putative active site [active] 617121006420 putative CoA binding site [chemical binding]; other site 617121006421 nudix motif; other site 617121006422 metal binding site [ion binding]; metal-binding site 617121006423 Predicted transcriptional regulators [Transcription]; Region: COG1695 617121006424 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 617121006425 Predicted membrane protein [Function unknown]; Region: COG4709 617121006426 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 617121006427 Predicted membrane protein [Function unknown]; Region: COG1511 617121006428 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 617121006429 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 617121006430 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 617121006431 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 617121006432 putative transposase OrfB; Reviewed; Region: PHA02517 617121006433 HTH-like domain; Region: HTH_21; pfam13276 617121006434 Integrase core domain; Region: rve; pfam00665 617121006435 Integrase core domain; Region: rve_2; pfam13333 617121006436 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 617121006437 Transposase; Region: HTH_Tnp_1; cl17663 617121006438 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 617121006439 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121006440 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 617121006441 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 617121006442 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 617121006443 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 617121006444 RNA binding surface [nucleotide binding]; other site 617121006445 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 617121006446 non-specific DNA binding site [nucleotide binding]; other site 617121006447 salt bridge; other site 617121006448 sequence-specific DNA binding site [nucleotide binding]; other site 617121006449 replicative DNA helicase; Provisional; Region: PRK05748 617121006450 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 617121006451 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 617121006452 Walker A motif; other site 617121006453 ATP binding site [chemical binding]; other site 617121006454 Walker B motif; other site 617121006455 DNA binding loops [nucleotide binding] 617121006456 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 617121006457 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 617121006458 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 617121006459 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 617121006460 DHH family; Region: DHH; pfam01368 617121006461 DHHA1 domain; Region: DHHA1; pfam02272 617121006462 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 617121006463 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 617121006464 Transposase [DNA replication, recombination, and repair]; Region: COG5433 617121006465 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 617121006466 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 617121006467 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 617121006468 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 617121006469 nudix motif; other site 617121006470 MarC family integral membrane protein; Region: MarC; pfam01914 617121006471 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 617121006472 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 617121006473 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 617121006474 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 617121006475 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 617121006476 putative L-serine binding site [chemical binding]; other site 617121006477 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 617121006478 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 617121006479 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 617121006480 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 617121006481 motif II; other site 617121006482 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 617121006483 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 617121006484 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 617121006485 Walker A/P-loop; other site 617121006486 ATP binding site [chemical binding]; other site 617121006487 Q-loop/lid; other site 617121006488 ABC transporter signature motif; other site 617121006489 Walker B; other site 617121006490 D-loop; other site 617121006491 H-loop/switch region; other site 617121006492 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 617121006493 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 617121006494 Walker A/P-loop; other site 617121006495 ATP binding site [chemical binding]; other site 617121006496 Q-loop/lid; other site 617121006497 ABC transporter signature motif; other site 617121006498 Walker B; other site 617121006499 D-loop; other site 617121006500 H-loop/switch region; other site 617121006501 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 617121006502 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 617121006503 Helix-turn-helix domain; Region: HTH_25; pfam13413 617121006504 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 617121006505 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 617121006506 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 617121006507 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 617121006508 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 617121006509 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 617121006510 recF protein; Region: recf; TIGR00611 617121006511 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 617121006512 Walker A/P-loop; other site 617121006513 ATP binding site [chemical binding]; other site 617121006514 Q-loop/lid; other site 617121006515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 617121006516 ABC transporter signature motif; other site 617121006517 Walker B; other site 617121006518 D-loop; other site 617121006519 H-loop/switch region; other site 617121006520 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 617121006521 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 617121006522 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 617121006523 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 617121006524 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 617121006525 active site 617121006526 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 617121006527 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 617121006528 active site 617121006529 HIGH motif; other site 617121006530 dimer interface [polypeptide binding]; other site 617121006531 KMSKS motif; other site 617121006532 Uncharacterized conserved protein [Function unknown]; Region: COG1284 617121006533 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 617121006534 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 617121006535 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 617121006536 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 617121006537 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 617121006538 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 617121006539 ABC transporter; Region: ABC_tran_2; pfam12848 617121006540 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 617121006541 Predicted membrane protein [Function unknown]; Region: COG4485 617121006542 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 617121006543 Helix-turn-helix domain; Region: HTH_38; pfam13936 617121006544 Integrase core domain; Region: rve; pfam00665 617121006545 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 617121006546 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 617121006547 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 617121006548 protein binding site [polypeptide binding]; other site 617121006549 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 617121006550 ParB-like nuclease domain; Region: ParBc; pfam02195 617121006551 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775