-- dump date 20140620_082924 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1116231000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1116231000002 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 1116231000003 Walker A motif; other site 1116231000004 ATP binding site [chemical binding]; other site 1116231000005 Walker B motif; other site 1116231000006 arginine finger; other site 1116231000007 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 1116231000008 DnaA box-binding interface [nucleotide binding]; other site 1116231000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 1116231000010 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 1116231000011 putative DNA binding surface [nucleotide binding]; other site 1116231000012 dimer interface [polypeptide binding]; other site 1116231000013 beta-clamp/clamp loader binding surface; other site 1116231000014 beta-clamp/translesion DNA polymerase binding surface; other site 1116231000015 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1116231000016 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 1116231000017 GTP-binding protein YchF; Reviewed; Region: PRK09601 1116231000018 YchF GTPase; Region: YchF; cd01900 1116231000019 G1 box; other site 1116231000020 GTP/Mg2+ binding site [chemical binding]; other site 1116231000021 Switch I region; other site 1116231000022 G2 box; other site 1116231000023 Switch II region; other site 1116231000024 G3 box; other site 1116231000025 G4 box; other site 1116231000026 G5 box; other site 1116231000027 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 1116231000028 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 1116231000029 putative active site [active] 1116231000030 catalytic residue [active] 1116231000031 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1116231000032 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1116231000033 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 1116231000034 ATP binding site [chemical binding]; other site 1116231000035 putative Mg++ binding site [ion binding]; other site 1116231000036 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 1116231000037 nucleotide binding region [chemical binding]; other site 1116231000038 ATP-binding site [chemical binding]; other site 1116231000039 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1116231000040 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 1116231000041 non-specific DNA binding site [nucleotide binding]; other site 1116231000042 salt bridge; other site 1116231000043 sequence-specific DNA binding site [nucleotide binding]; other site 1116231000044 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 1116231000045 RNA binding surface [nucleotide binding]; other site 1116231000046 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1116231000047 Septum formation initiator; Region: DivIC; pfam04977 1116231000048 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 1116231000049 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1116231000050 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1116231000051 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 1116231000052 Ligand Binding Site [chemical binding]; other site 1116231000053 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1116231000054 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1116231000055 active site 1116231000056 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1116231000057 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 1116231000058 Walker A motif; other site 1116231000059 ATP binding site [chemical binding]; other site 1116231000060 Walker B motif; other site 1116231000061 arginine finger; other site 1116231000062 Peptidase family M41; Region: Peptidase_M41; pfam01434 1116231000065 potential frameshift: common BLAST hit: gi|298502257|ref|YP_003724197.1| transposase 1116231000066 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231000067 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231000068 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1116231000069 rod shape-determining protein MreC; Provisional; Region: PRK13922 1116231000070 rod shape-determining protein MreC; Region: MreC; pfam04085 1116231000071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1116231000072 Surface antigen [General function prediction only]; Region: COG3942 1116231000073 CHAP domain; Region: CHAP; pfam05257 1116231000074 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 1116231000075 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1116231000076 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1116231000077 active site 1116231000078 aromatic amino acid aminotransferase; Validated; Region: PRK07309 1116231000079 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 1116231000080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231000081 homodimer interface [polypeptide binding]; other site 1116231000082 catalytic residue [active] 1116231000083 Recombination protein O N terminal; Region: RecO_N; pfam11967 1116231000084 DNA repair protein RecO; Region: reco; TIGR00613 1116231000085 Recombination protein O C terminal; Region: RecO_C; pfam02565 1116231000086 putative phosphate acyltransferase; Provisional; Region: PRK05331 1116231000087 acyl carrier protein; Provisional; Region: PRK12449 1116231000088 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1116231000089 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1116231000090 ATP binding site [chemical binding]; other site 1116231000091 active site 1116231000092 substrate binding site [chemical binding]; other site 1116231000093 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 1116231000094 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 1116231000095 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 1116231000096 dimerization interface [polypeptide binding]; other site 1116231000097 ATP binding site [chemical binding]; other site 1116231000098 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 1116231000099 dimerization interface [polypeptide binding]; other site 1116231000100 ATP binding site [chemical binding]; other site 1116231000101 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1116231000102 putative active site [active] 1116231000103 catalytic triad [active] 1116231000104 amidophosphoribosyltransferase; Provisional; Region: PRK07272 1116231000105 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 1116231000106 active site 1116231000107 tetramer interface [polypeptide binding]; other site 1116231000108 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1116231000109 active site 1116231000110 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1116231000111 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 1116231000112 dimerization interface [polypeptide binding]; other site 1116231000113 putative ATP binding site [chemical binding]; other site 1116231000114 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1116231000115 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1116231000116 active site 1116231000117 substrate binding site [chemical binding]; other site 1116231000118 cosubstrate binding site; other site 1116231000119 catalytic site [active] 1116231000120 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1116231000121 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 1116231000122 purine monophosphate binding site [chemical binding]; other site 1116231000123 dimer interface [polypeptide binding]; other site 1116231000124 putative catalytic residues [active] 1116231000125 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1116231000126 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1116231000128 similar to Transposase 1116231000129 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1116231000130 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1116231000131 active site 1116231000132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1116231000133 MORN repeat; Region: MORN; cl14787 1116231000134 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1116231000135 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1116231000136 active site 1116231000137 catalytic triad [active] 1116231000138 oxyanion hole [active] 1116231000139 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 1116231000140 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1116231000141 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231000142 catalytic residue [active] 1116231000143 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1116231000144 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 1116231000145 MMPL family; Region: MMPL; pfam03176 1116231000146 MMPL family; Region: MMPL; pfam03176 1116231000148 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1116231000149 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 1116231000150 active site 1116231000151 phosphorylation site [posttranslational modification] 1116231000152 intermolecular recognition site; other site 1116231000153 dimerization interface [polypeptide binding]; other site 1116231000154 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 1116231000155 DNA binding residues [nucleotide binding] 1116231000156 dimerization interface [polypeptide binding]; other site 1116231000159 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1116231000160 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1116231000161 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1116231000162 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1116231000163 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1116231000164 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1116231000165 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1116231000166 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1116231000167 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 1116231000168 putative translocon binding site; other site 1116231000169 protein-rRNA interface [nucleotide binding]; other site 1116231000170 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1116231000171 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 1116231000172 G-X-X-G motif; other site 1116231000173 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1116231000174 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 1116231000175 23S rRNA interface [nucleotide binding]; other site 1116231000176 5S rRNA interface [nucleotide binding]; other site 1116231000177 putative antibiotic binding site [chemical binding]; other site 1116231000178 L25 interface [polypeptide binding]; other site 1116231000179 L27 interface [polypeptide binding]; other site 1116231000180 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 1116231000181 23S rRNA interface [nucleotide binding]; other site 1116231000182 putative translocon interaction site; other site 1116231000183 signal recognition particle (SRP54) interaction site; other site 1116231000184 L23 interface [polypeptide binding]; other site 1116231000185 trigger factor interaction site; other site 1116231000186 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1116231000187 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1116231000188 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1116231000189 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1116231000190 RNA binding site [nucleotide binding]; other site 1116231000191 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1116231000192 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1116231000193 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1116231000194 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1116231000195 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1116231000196 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1116231000197 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1116231000198 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1116231000199 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 1116231000200 5S rRNA interface [nucleotide binding]; other site 1116231000201 L27 interface [polypeptide binding]; other site 1116231000202 23S rRNA interface [nucleotide binding]; other site 1116231000203 L5 interface [polypeptide binding]; other site 1116231000204 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1116231000205 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1116231000206 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1116231000207 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 1116231000208 23S rRNA binding site [nucleotide binding]; other site 1116231000209 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1116231000210 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1116231000211 SecY translocase; Region: SecY; pfam00344 1116231000212 adenylate kinase; Reviewed; Region: adk; PRK00279 1116231000213 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 1116231000214 AMP-binding site [chemical binding]; other site 1116231000215 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1116231000216 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 1116231000217 rRNA binding site [nucleotide binding]; other site 1116231000218 predicted 30S ribosome binding site; other site 1116231000219 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1116231000220 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1116231000221 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1116231000222 30S ribosomal protein S11; Validated; Region: PRK05309 1116231000223 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1116231000224 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1116231000225 alphaNTD homodimer interface [polypeptide binding]; other site 1116231000226 alphaNTD - beta interaction site [polypeptide binding]; other site 1116231000227 alphaNTD - beta' interaction site [polypeptide binding]; other site 1116231000228 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1116231000229 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1116231000231 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231000232 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231000234 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1116231000235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1116231000236 Helix-turn-helix domain; Region: HTH_38; pfam13936 1116231000237 DNA-binding interface [nucleotide binding]; DNA binding site 1116231000238 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1116231000239 HTH domain; Region: HTH_11; cl17392 1116231000240 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1116231000241 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1116231000242 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1116231000243 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1116231000244 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 1116231000245 putative Zn2+ binding site [ion binding]; other site 1116231000246 putative DNA binding site [nucleotide binding]; other site 1116231000247 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1116231000248 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1116231000249 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1116231000250 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 1116231000251 ABC-ATPase subunit interface; other site 1116231000252 dimer interface [polypeptide binding]; other site 1116231000253 putative PBP binding regions; other site 1116231000254 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1116231000255 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1116231000256 active site 1116231000257 HIGH motif; other site 1116231000258 dimer interface [polypeptide binding]; other site 1116231000259 KMSKS motif; other site 1116231000260 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 1116231000261 RNA binding surface [nucleotide binding]; other site 1116231000262 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1116231000263 Transglycosylase; Region: Transgly; pfam00912 1116231000264 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1116231000265 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1116231000266 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 1116231000267 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1116231000268 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 1116231000269 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 1116231000270 RPB1 interaction site [polypeptide binding]; other site 1116231000271 RPB10 interaction site [polypeptide binding]; other site 1116231000272 RPB11 interaction site [polypeptide binding]; other site 1116231000273 RPB3 interaction site [polypeptide binding]; other site 1116231000274 RPB12 interaction site [polypeptide binding]; other site 1116231000275 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1116231000276 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1116231000277 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1116231000278 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1116231000279 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1116231000280 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1116231000281 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1116231000282 G-loop; other site 1116231000283 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1116231000284 DNA binding site [nucleotide binding] 1116231000285 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1116231000286 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 1116231000287 Type II/IV secretion system protein; Region: T2SE; pfam00437 1116231000288 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 1116231000289 Walker A motif; other site 1116231000290 ATP binding site [chemical binding]; other site 1116231000291 Walker B motif; other site 1116231000292 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1116231000293 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1116231000294 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 1116231000295 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1116231000296 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 1116231000297 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1116231000298 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1116231000299 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 1116231000300 S-adenosylmethionine binding site [chemical binding]; other site 1116231000301 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1116231000302 propionate/acetate kinase; Provisional; Region: PRK12379 1116231000303 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 1116231000304 non-specific DNA binding site [nucleotide binding]; other site 1116231000305 salt bridge; other site 1116231000306 sequence-specific DNA binding site [nucleotide binding]; other site 1116231000307 CAAX protease self-immunity; Region: Abi; pfam02517 1116231000308 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1116231000309 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 1116231000310 non-specific DNA binding site [nucleotide binding]; other site 1116231000311 salt bridge; other site 1116231000312 sequence-specific DNA binding site [nucleotide binding]; other site 1116231000313 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1116231000314 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1116231000315 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1116231000316 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1116231000317 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1116231000318 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1116231000319 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1116231000320 ATP-grasp domain; Region: ATP-grasp; pfam02222 1116231000321 adenylosuccinate lyase; Provisional; Region: PRK07492 1116231000322 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1116231000323 tetramer interface [polypeptide binding]; other site 1116231000324 active site 1116231000325 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1116231000326 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1116231000327 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1116231000328 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 1116231000329 oligomer interface [polypeptide binding]; other site 1116231000330 active site 1116231000331 metal binding site [ion binding]; metal-binding site 1116231000332 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 1116231000333 catalytic residues [active] 1116231000334 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 1116231000335 putative tRNA-binding site [nucleotide binding]; other site 1116231000337 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1116231000338 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 1116231000339 dimer interface [polypeptide binding]; other site 1116231000340 ssDNA binding site [nucleotide binding]; other site 1116231000341 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1116231000342 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 1116231000343 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1116231000344 CPxP motif; other site 1116231000345 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 1116231000346 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1116231000347 active site 1116231000348 motif I; other site 1116231000349 motif II; other site 1116231000350 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 1116231000351 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1116231000352 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1116231000353 ligand binding site [chemical binding]; other site 1116231000354 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1116231000355 Histidine kinase; Region: HisKA_3; pfam07730 1116231000356 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 1116231000357 ATP binding site [chemical binding]; other site 1116231000358 Mg2+ binding site [ion binding]; other site 1116231000359 G-X-G motif; other site 1116231000360 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1116231000361 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 1116231000362 active site 1116231000363 phosphorylation site [posttranslational modification] 1116231000364 intermolecular recognition site; other site 1116231000365 dimerization interface [polypeptide binding]; other site 1116231000366 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 1116231000367 DNA binding residues [nucleotide binding] 1116231000368 dimerization interface [polypeptide binding]; other site 1116231000369 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1116231000370 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1116231000371 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 1116231000372 active pocket/dimerization site; other site 1116231000373 active site 1116231000374 phosphorylation site [posttranslational modification] 1116231000375 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; cl00021 1116231000376 active site 1116231000377 phosphorylation site [posttranslational modification] 1116231000378 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1116231000379 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1116231000380 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 1116231000381 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 1116231000382 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1116231000383 zinc binding site [ion binding]; other site 1116231000384 putative ligand binding site [chemical binding]; other site 1116231000385 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1116231000386 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 1116231000387 TM-ABC transporter signature motif; other site 1116231000388 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1116231000389 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231000390 Walker A/P-loop; other site 1116231000391 ATP binding site [chemical binding]; other site 1116231000392 Q-loop/lid; other site 1116231000393 ABC transporter signature motif; other site 1116231000394 Walker B; other site 1116231000395 D-loop; other site 1116231000396 H-loop/switch region; other site 1116231000397 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 1116231000398 oligomerisation interface [polypeptide binding]; other site 1116231000399 mobile loop; other site 1116231000400 roof hairpin; other site 1116231000401 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1116231000402 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 1116231000403 ring oligomerisation interface [polypeptide binding]; other site 1116231000404 ATP/Mg binding site [chemical binding]; other site 1116231000405 stacking interactions; other site 1116231000406 hinge regions; other site 1116231000407 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 1116231000408 non-specific DNA binding site [nucleotide binding]; other site 1116231000409 salt bridge; other site 1116231000410 sequence-specific DNA binding site [nucleotide binding]; other site 1116231000411 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1116231000412 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231000413 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231000414 Predicted membrane protein [Function unknown]; Region: COG4640 1116231000415 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1116231000416 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1116231000417 active site 1116231000418 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1116231000419 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 1116231000420 putative substrate translocation pore; other site 1116231000421 Integrase core domain; Region: rve_3; pfam13683 1116231000424 Transglycosylase; Region: Transgly; pfam00912 1116231000425 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1116231000426 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1116231000427 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1116231000428 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1116231000429 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1116231000430 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1116231000431 putative homodimer interface [polypeptide binding]; other site 1116231000432 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1116231000433 heterodimer interface [polypeptide binding]; other site 1116231000434 homodimer interface [polypeptide binding]; other site 1116231000435 Ion transport protein; Region: Ion_trans; pfam00520 1116231000436 Ion channel; Region: Ion_trans_2; pfam07885 1116231000437 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1116231000438 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1116231000439 active site 1116231000440 nucleophile elbow; other site 1116231000441 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1116231000442 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1116231000443 HIGH motif; other site 1116231000444 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1116231000445 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1116231000446 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1116231000447 active site 1116231000448 KMSKS motif; other site 1116231000449 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1116231000450 tRNA binding surface [nucleotide binding]; other site 1116231000451 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1116231000453 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 1116231000454 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1116231000455 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1116231000456 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1116231000457 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 1116231000458 non-specific DNA binding site [nucleotide binding]; other site 1116231000459 salt bridge; other site 1116231000460 sequence-specific DNA binding site [nucleotide binding]; other site 1116231000461 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1116231000462 aspartate aminotransferase; Provisional; Region: PRK05764 1116231000463 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 1116231000464 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231000465 homodimer interface [polypeptide binding]; other site 1116231000466 catalytic residue [active] 1116231000467 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1116231000468 H+ Antiporter protein; Region: 2A0121; TIGR00900 1116231000469 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1116231000470 similar to Integrase 1116231000472 recombination factor protein RarA; Reviewed; Region: PRK13342 1116231000473 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 1116231000474 Walker A motif; other site 1116231000475 ATP binding site [chemical binding]; other site 1116231000476 Walker B motif; other site 1116231000477 arginine finger; other site 1116231000478 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1116231000479 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1116231000480 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1116231000481 Coenzyme A binding pocket [chemical binding]; other site 1116231000482 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1116231000483 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 1116231000484 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 1116231000485 GIY-YIG motif/motif A; other site 1116231000486 putative active site [active] 1116231000487 putative metal binding site [ion binding]; other site 1116231000488 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 1116231000489 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1116231000490 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 1116231000491 S-adenosylmethionine binding site [chemical binding]; other site 1116231000492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1116231000493 RNA methyltransferase, RsmE family; Region: TIGR00046 1116231000494 similar to Maltose operon transcriptional repressor MalR, LacI family 1116231000495 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1116231000496 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 1116231000497 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 1116231000498 active site turn [active] 1116231000499 phosphorylation site [posttranslational modification] 1116231000500 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1116231000501 HPr interaction site; other site 1116231000502 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1116231000503 active site 1116231000504 phosphorylation site [posttranslational modification] 1116231000505 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 1116231000506 putative catalytic site [active] 1116231000507 putative metal binding site [ion binding]; other site 1116231000508 putative phosphate binding site [ion binding]; other site 1116231000509 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1116231000510 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1116231000511 putative oligomer interface [polypeptide binding]; other site 1116231000512 putative active site [active] 1116231000513 metal binding site [ion binding]; metal-binding site 1116231000514 flavoprotein NrdI; Provisional; Region: PRK02551 1116231000517 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cl00166 1116231000519 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1116231000520 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1116231000521 DNA-binding site [nucleotide binding]; DNA binding site 1116231000522 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1116231000523 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1116231000524 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 1116231000525 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1116231000526 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1116231000527 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 1116231000528 dimer interface [polypeptide binding]; other site 1116231000529 conserved gate region; other site 1116231000530 putative PBP binding loops; other site 1116231000531 ABC-ATPase subunit interface; other site 1116231000532 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1116231000533 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 1116231000534 dimer interface [polypeptide binding]; other site 1116231000535 conserved gate region; other site 1116231000536 ABC-ATPase subunit interface; other site 1116231000538 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1116231000539 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1116231000540 DNA-binding site [nucleotide binding]; DNA binding site 1116231000541 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1116231000544 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 1116231000545 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1116231000546 HD domain; Region: HD_4; pfam13328 1116231000547 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1116231000548 synthetase active site [active] 1116231000549 NTP binding site [chemical binding]; other site 1116231000550 metal binding site [ion binding]; metal-binding site 1116231000551 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 1116231000552 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1116231000553 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 1116231000554 putative active site [active] 1116231000555 dimerization interface [polypeptide binding]; other site 1116231000556 putative tRNAtyr binding site [nucleotide binding]; other site 1116231000557 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1116231000558 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1116231000559 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1116231000560 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1116231000561 Walker A/P-loop; other site 1116231000562 ATP binding site [chemical binding]; other site 1116231000563 Q-loop/lid; other site 1116231000564 ABC transporter signature motif; other site 1116231000565 Walker B; other site 1116231000566 D-loop; other site 1116231000567 H-loop/switch region; other site 1116231000568 TOBE domain; Region: TOBE_2; pfam08402 1116231000569 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1116231000570 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1116231000571 DNA-binding site [nucleotide binding]; DNA binding site 1116231000572 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1116231000573 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 1116231000574 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 1116231000575 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 1116231000576 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 1116231000577 putative substrate binding site [chemical binding]; other site 1116231000578 putative ATP binding site [chemical binding]; other site 1116231000579 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 1116231000580 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 1116231000581 active site 1116231000582 phosphorylation site [posttranslational modification] 1116231000583 Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]; Region: SgaB; COG3414 1116231000584 active site 1116231000585 P-loop; other site 1116231000586 phosphorylation site [posttranslational modification] 1116231000587 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1116231000588 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 1116231000589 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1116231000590 active site 1116231000591 catalytic residues [active] 1116231000592 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1116231000593 CAT RNA binding domain; Region: CAT_RBD; smart01061 1116231000594 PRD domain; Region: PRD; pfam00874 1116231000595 PRD domain; Region: PRD; pfam00874 1116231000596 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 1116231000597 beta-galactosidase; Region: BGL; TIGR03356 1116231000599 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 1116231000600 methionine cluster; other site 1116231000601 active site 1116231000602 phosphorylation site [posttranslational modification] 1116231000603 metal binding site [ion binding]; metal-binding site 1116231000604 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 1116231000605 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1116231000606 PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two...; Region: PTS_IIB_lactose; cd05565 1116231000607 active site 1116231000608 P-loop; other site 1116231000609 phosphorylation site [posttranslational modification] 1116231000610 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 1116231000611 beta-galactosidase; Region: BGL; TIGR03356 1116231000612 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1116231000615 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1116231000616 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1116231000617 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1116231000618 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1116231000619 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 1116231000620 Melibiase; Region: Melibiase; pfam02065 1116231000621 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1116231000622 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1116231000623 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 1116231000624 dimer interface [polypeptide binding]; other site 1116231000625 conserved gate region; other site 1116231000626 putative PBP binding loops; other site 1116231000627 ABC-ATPase subunit interface; other site 1116231000628 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1116231000629 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 1116231000630 dimer interface [polypeptide binding]; other site 1116231000631 conserved gate region; other site 1116231000632 putative PBP binding loops; other site 1116231000633 ABC-ATPase subunit interface; other site 1116231000634 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 1116231000635 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 1116231000636 active site 1116231000637 homodimer interface [polypeptide binding]; other site 1116231000638 catalytic site [active] 1116231000639 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1116231000640 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 1116231000641 Ca binding site [ion binding]; other site 1116231000642 active site 1116231000643 catalytic site [active] 1116231000644 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 1116231000645 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1116231000646 DNA binding site [nucleotide binding] 1116231000647 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 1116231000648 putative dimerization interface [polypeptide binding]; other site 1116231000649 putative ligand binding site [chemical binding]; other site 1116231000650 galactokinase; Provisional; Region: PRK05322 1116231000651 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1116231000652 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1116231000653 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1116231000654 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1116231000655 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1116231000656 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 1116231000657 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1116231000658 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1116231000659 NAD binding site [chemical binding]; other site 1116231000660 homodimer interface [polypeptide binding]; other site 1116231000661 active site 1116231000662 substrate binding site [chemical binding]; other site 1116231000663 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1116231000664 Coenzyme A binding pocket [chemical binding]; other site 1116231000665 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1116231000666 Coenzyme A binding pocket [chemical binding]; other site 1116231000667 preprotein translocase subunit YajC; Validated; Region: yajC; PRK06531 1116231000668 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1116231000669 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 1116231000670 catalytic residue [active] 1116231000671 putative FPP diphosphate binding site; other site 1116231000672 putative FPP binding hydrophobic cleft; other site 1116231000673 dimer interface [polypeptide binding]; other site 1116231000674 putative IPP diphosphate binding site; other site 1116231000675 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1116231000676 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1116231000677 RIP metalloprotease RseP; Region: TIGR00054 1116231000678 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 1116231000679 active site 1116231000680 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1116231000681 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 1116231000682 protein binding site [polypeptide binding]; other site 1116231000683 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 1116231000684 putative substrate binding region [chemical binding]; other site 1116231000685 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1116231000686 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 1116231000687 motif 1; other site 1116231000688 dimer interface [polypeptide binding]; other site 1116231000689 active site 1116231000690 motif 2; other site 1116231000691 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 1116231000692 putative deacylase active site [active] 1116231000693 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 1116231000694 active site 1116231000695 motif 3; other site 1116231000696 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 1116231000697 anticodon binding site; other site 1116231000698 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1116231000699 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1116231000700 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 1116231000701 generic binding surface II; other site 1116231000702 generic binding surface I; other site 1116231000703 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1116231000704 active site 1116231000705 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1116231000706 active site 1116231000707 catalytic site [active] 1116231000708 substrate binding site [chemical binding]; other site 1116231000709 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1116231000710 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1116231000711 MarR family; Region: MarR; pfam01047 1116231000712 MarR family; Region: MarR_2; cl17246 1116231000713 Predicted flavoprotein [General function prediction only]; Region: COG0431 1116231000714 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1116231000715 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 1116231000716 active site 1116231000717 catalytic residues [active] 1116231000718 metal binding site [ion binding]; metal-binding site 1116231000719 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 1116231000720 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 1116231000721 ligand binding site [chemical binding]; other site 1116231000722 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 1116231000723 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 1116231000724 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1116231000725 putative substrate translocation pore; other site 1116231000727 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_3; cd07241 1116231000728 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1116231000729 putative metal binding site [ion binding]; other site 1116231000730 similar to Hypothetical protein 1116231000731 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 1116231000732 16S/18S rRNA binding site [nucleotide binding]; other site 1116231000733 S13e-L30e interaction site [polypeptide binding]; other site 1116231000734 25S rRNA binding site [nucleotide binding]; other site 1116231000736 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1116231000737 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1116231000738 catalytic residues [active] 1116231000739 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1116231000740 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1116231000741 putative active site [active] 1116231000742 metal binding site [ion binding]; metal-binding site 1116231000743 Predicted membrane protein [Function unknown]; Region: COG2261 1116231000744 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1116231000745 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1116231000746 RNase E interface [polypeptide binding]; other site 1116231000747 trimer interface [polypeptide binding]; other site 1116231000748 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1116231000749 RNase E interface [polypeptide binding]; other site 1116231000750 trimer interface [polypeptide binding]; other site 1116231000751 active site 1116231000752 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 1116231000753 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 1116231000754 RNA binding site [nucleotide binding]; other site 1116231000755 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 1116231000756 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 1116231000757 trimer interface [polypeptide binding]; other site 1116231000758 active site 1116231000759 substrate binding site [chemical binding]; other site 1116231000760 CoA binding site [chemical binding]; other site 1116231000761 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1116231000762 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1116231000763 active site 1116231000764 HIGH motif; other site 1116231000765 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1116231000766 KMSKS motif; other site 1116231000767 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1116231000768 tRNA binding surface [nucleotide binding]; other site 1116231000769 anticodon binding site; other site 1116231000770 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 1116231000771 active site 1116231000772 metal binding site [ion binding]; metal-binding site 1116231000773 dimerization interface [polypeptide binding]; other site 1116231000774 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1116231000775 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1116231000776 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1116231000777 YacP-like NYN domain; Region: NYN_YacP; cl01491 1116231000778 EDD domain protein, DegV family; Region: DegV; TIGR00762 1116231000779 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1116231000780 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1116231000781 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1116231000782 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1116231000783 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 1116231000784 23S rRNA interface [nucleotide binding]; other site 1116231000785 L3 interface [polypeptide binding]; other site 1116231000786 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1116231000787 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 1116231000788 DNA binding site [nucleotide binding] 1116231000789 active site 1116231000790 Int/Topo IB signature motif; other site 1116231000791 catalytic residues [active] 1116231000793 T5orf172 domain; Region: T5orf172; pfam10544 1116231000794 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1116231000795 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 1116231000796 ATP binding site [chemical binding]; other site 1116231000797 putative Mg++ binding site [ion binding]; other site 1116231000798 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1116231000800 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1116231000801 Divergent AAA domain; Region: AAA_4; pfam04326 1116231000802 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1116231000803 Transposase; Region: HTH_Tnp_1; cl17663 1116231000804 putative transposase OrfB; Reviewed; Region: PHA02517 1116231000805 HTH-like domain; Region: HTH_21; pfam13276 1116231000806 Integrase core domain; Region: rve; pfam00665 1116231000807 Integrase core domain; Region: rve_3; pfam13683 1116231000808 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1116231000809 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1116231000811 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 1116231000812 metal-binding site [ion binding] 1116231000813 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 1116231000814 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1116231000815 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1116231000816 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1116231000817 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 1116231000818 Cadmium resistance transporter; Region: Cad; pfam03596 1116231000819 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 1116231000820 putative DNA binding site [nucleotide binding]; other site 1116231000821 putative Zn2+ binding site [ion binding]; other site 1116231000822 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1116231000823 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 1116231000824 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1116231000825 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 1116231000826 catalytic core [active] 1116231000827 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 1116231000828 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1116231000829 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1116231000830 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1116231000831 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1116231000832 GrpE; Region: GrpE; pfam01025 1116231000833 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 1116231000834 dimer interface [polypeptide binding]; other site 1116231000835 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1116231000836 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1116231000837 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1116231000838 nucleotide binding site [chemical binding]; other site 1116231000839 NEF interaction site [polypeptide binding]; other site 1116231000840 SBD interface [polypeptide binding]; other site 1116231000841 chaperone protein DnaJ; Provisional; Region: PRK14276 1116231000842 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 1116231000843 HSP70 interaction site [polypeptide binding]; other site 1116231000844 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1116231000845 substrate binding site [polypeptide binding]; other site 1116231000846 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1116231000847 Zn binding sites [ion binding]; other site 1116231000848 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1116231000849 substrate binding site [polypeptide binding]; other site 1116231000850 dimer interface [polypeptide binding]; other site 1116231000851 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1116231000852 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1116231000853 dimerization interface 3.5A [polypeptide binding]; other site 1116231000854 active site 1116231000855 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 1116231000856 dimer interface [polypeptide binding]; other site 1116231000857 substrate binding site [chemical binding]; other site 1116231000858 ATP binding site [chemical binding]; other site 1116231000859 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 1116231000860 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1116231000861 hypothetical protein; Provisional; Region: PRK13690 1116231000862 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1116231000863 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1116231000864 trigger factor; Provisional; Region: tig; PRK01490 1116231000865 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1116231000866 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1116231000867 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 1116231000868 CTP synthetase; Validated; Region: pyrG; PRK05380 1116231000869 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 1116231000870 Catalytic site [active] 1116231000871 active site 1116231000872 UTP binding site [chemical binding]; other site 1116231000873 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1116231000874 active site 1116231000875 putative oxyanion hole; other site 1116231000876 catalytic triad [active] 1116231000877 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1116231000878 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231000879 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231000880 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1116231000881 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 1116231000882 intersubunit interface [polypeptide binding]; other site 1116231000883 active site 1116231000884 zinc binding site [ion binding]; other site 1116231000885 Na+ binding site [ion binding]; other site 1116231000887 V-type ATP synthase subunit I; Validated; Region: PRK05771 1116231000888 stage V sporulation protein K; Region: spore_V_K; TIGR02881 1116231000889 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 1116231000890 Walker A motif; other site 1116231000891 ATP binding site [chemical binding]; other site 1116231000892 Walker B motif; other site 1116231000893 arginine finger; other site 1116231000894 Tn1545-related conjugative transposon integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes bacterial (gram positive) and phage integrases, including those similar to Tn1545, Tn5252, and...; Region: INT_Tn1545_C; cd01199 1116231000895 Int/Topo IB signature motif; other site 1116231000896 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1116231000897 Integrase core domain; Region: rve; pfam00665 1116231000899 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1116231000900 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1116231000901 DNA binding residues [nucleotide binding] 1116231000902 drug binding residues [chemical binding]; other site 1116231000903 dimer interface [polypeptide binding]; other site 1116231000904 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1116231000905 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1116231000906 Ring-infected erythrocyte surface antigen; Provisional; Region: PTZ00341 1116231000908 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1116231000909 Integrase core domain; Region: rve; pfam00665 1116231000910 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 1116231000911 dimerization interface [polypeptide binding]; other site 1116231000912 putative DNA binding site [nucleotide binding]; other site 1116231000913 putative Zn2+ binding site [ion binding]; other site 1116231000914 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1116231000915 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 1116231000916 metal-binding site [ion binding] 1116231000917 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1116231000918 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1116231000919 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1116231000920 Integrase core domain; Region: rve; pfam00665 1116231000921 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1116231000922 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 1116231000923 Predicted membrane protein [Function unknown]; Region: COG2261 1116231000924 myosin-cross-reactive antigen; Provisional; Region: PRK13977 1116231000925 Tn1545-related conjugative transposon integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes bacterial (gram positive) and phage integrases, including those similar to Tn1545, Tn5252, and...; Region: INT_Tn1545_C; cd01199 1116231000926 Int/Topo IB signature motif; other site 1116231000928 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1116231000929 MULE transposase domain; Region: MULE; pfam10551 1116231000930 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1116231000931 Coenzyme A binding pocket [chemical binding]; other site 1116231000932 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 1116231000933 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 1116231000934 dimer interface [polypeptide binding]; other site 1116231000935 conserved gate region; other site 1116231000936 ABC-ATPase subunit interface; other site 1116231000937 similar to Osmotically activated L-carnitine/choline ABC transporter, substrate-binding protein OpuCC 1116231000938 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 1116231000939 dimer interface [polypeptide binding]; other site 1116231000940 conserved gate region; other site 1116231000941 putative PBP binding loops; other site 1116231000942 ABC-ATPase subunit interface; other site 1116231000943 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1116231000944 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 1116231000945 Walker A/P-loop; other site 1116231000946 ATP binding site [chemical binding]; other site 1116231000947 Q-loop/lid; other site 1116231000948 ABC transporter signature motif; other site 1116231000949 Walker B; other site 1116231000950 D-loop; other site 1116231000951 H-loop/switch region; other site 1116231000952 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 1116231000954 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1116231000955 MULE transposase domain; Region: MULE; pfam10551 1116231000956 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1116231000957 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1116231000958 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1116231000959 DAK2 domain; Region: Dak2; pfam02734 1116231000960 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1116231000961 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 1116231000962 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1116231000963 PYR/PP interface [polypeptide binding]; other site 1116231000964 dimer interface [polypeptide binding]; other site 1116231000965 TPP binding site [chemical binding]; other site 1116231000966 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1116231000967 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1116231000968 TPP-binding site [chemical binding]; other site 1116231000969 dimer interface [polypeptide binding]; other site 1116231000970 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1116231000971 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1116231000972 putative valine binding site [chemical binding]; other site 1116231000973 dimer interface [polypeptide binding]; other site 1116231000974 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1116231000975 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1116231000976 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1116231000977 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1116231000978 threonine dehydratase; Validated; Region: PRK08639 1116231000979 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1116231000980 tetramer interface [polypeptide binding]; other site 1116231000981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231000982 catalytic residue [active] 1116231000983 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1116231000984 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1116231000985 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 1116231000986 VanZ like family; Region: VanZ; cl01971 1116231000987 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1116231000988 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231000989 Walker A/P-loop; other site 1116231000990 ATP binding site [chemical binding]; other site 1116231000991 Q-loop/lid; other site 1116231000992 ABC transporter signature motif; other site 1116231000993 Walker B; other site 1116231000994 D-loop; other site 1116231000995 H-loop/switch region; other site 1116231000996 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 1116231000997 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1116231000998 substrate binding pocket [chemical binding]; other site 1116231000999 membrane-bound complex binding site; other site 1116231001000 hinge residues; other site 1116231001001 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1116231001002 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 1116231001003 dimer interface [polypeptide binding]; other site 1116231001004 conserved gate region; other site 1116231001005 putative PBP binding loops; other site 1116231001006 ABC-ATPase subunit interface; other site 1116231001007 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1116231001008 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1116231001009 adaptor protein; Provisional; Region: PRK02315 1116231001010 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1116231001011 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 1116231001012 Mg++ binding site [ion binding]; other site 1116231001013 putative catalytic motif [active] 1116231001014 substrate binding site [chemical binding]; other site 1116231001015 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1116231001016 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1116231001017 Walker A/P-loop; other site 1116231001018 ATP binding site [chemical binding]; other site 1116231001019 Q-loop/lid; other site 1116231001020 ABC transporter signature motif; other site 1116231001021 Walker B; other site 1116231001022 D-loop; other site 1116231001023 H-loop/switch region; other site 1116231001024 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1116231001025 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1116231001026 FeS assembly protein SufD; Region: sufD; TIGR01981 1116231001027 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1116231001028 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 1116231001029 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1116231001030 catalytic residue [active] 1116231001031 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1116231001032 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1116231001033 trimerization site [polypeptide binding]; other site 1116231001034 active site 1116231001035 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1116231001036 FeS assembly protein SufB; Region: sufB; TIGR01980 1116231001037 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1116231001038 Beta-lactamase; Region: Beta-lactamase; cl17358 1116231001039 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1116231001040 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1116231001041 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1116231001042 peptide binding site [polypeptide binding]; other site 1116231001043 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1116231001044 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 1116231001045 dimer interface [polypeptide binding]; other site 1116231001046 conserved gate region; other site 1116231001047 putative PBP binding loops; other site 1116231001048 ABC-ATPase subunit interface; other site 1116231001049 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1116231001050 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1116231001051 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 1116231001052 dimer interface [polypeptide binding]; other site 1116231001053 conserved gate region; other site 1116231001054 putative PBP binding loops; other site 1116231001055 ABC-ATPase subunit interface; other site 1116231001056 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1116231001057 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1116231001058 Walker A/P-loop; other site 1116231001059 ATP binding site [chemical binding]; other site 1116231001060 Q-loop/lid; other site 1116231001061 ABC transporter signature motif; other site 1116231001062 Walker B; other site 1116231001063 D-loop; other site 1116231001064 H-loop/switch region; other site 1116231001065 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1116231001066 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1116231001067 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1116231001068 Walker A/P-loop; other site 1116231001069 ATP binding site [chemical binding]; other site 1116231001070 Q-loop/lid; other site 1116231001071 ABC transporter signature motif; other site 1116231001072 Walker B; other site 1116231001073 D-loop; other site 1116231001074 H-loop/switch region; other site 1116231001075 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1116231001076 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1116231001077 aspartate kinase; Reviewed; Region: PRK09034 1116231001078 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 1116231001079 putative catalytic residues [active] 1116231001080 putative nucleotide binding site [chemical binding]; other site 1116231001081 putative aspartate binding site [chemical binding]; other site 1116231001082 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 1116231001083 allosteric regulatory residue; other site 1116231001084 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 1116231001085 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1116231001086 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 1116231001087 motif II; other site 1116231001088 enoyl-CoA hydratase; Provisional; Region: PRK07260 1116231001089 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 1116231001090 substrate binding site [chemical binding]; other site 1116231001091 oxyanion hole (OAH) forming residues; other site 1116231001092 trimer interface [polypeptide binding]; other site 1116231001093 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1116231001094 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 1116231001095 putative Zn2+ binding site [ion binding]; other site 1116231001096 putative DNA binding site [nucleotide binding]; other site 1116231001097 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1116231001098 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 1116231001099 dimer interface [polypeptide binding]; other site 1116231001100 active site 1116231001101 CoA binding pocket [chemical binding]; other site 1116231001102 acyl carrier protein; Provisional; Region: acpP; PRK00982 1116231001103 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1116231001104 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 1116231001105 FMN binding site [chemical binding]; other site 1116231001106 substrate binding site [chemical binding]; other site 1116231001107 putative catalytic residue [active] 1116231001108 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1116231001109 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1116231001110 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1116231001111 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1116231001112 NAD(P) binding site [chemical binding]; other site 1116231001113 homotetramer interface [polypeptide binding]; other site 1116231001114 homodimer interface [polypeptide binding]; other site 1116231001115 active site 1116231001116 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1116231001117 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 1116231001118 dimer interface [polypeptide binding]; other site 1116231001119 active site 1116231001120 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1116231001121 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 1116231001122 carboxyltransferase (CT) interaction site; other site 1116231001123 biotinylation site [posttranslational modification]; other site 1116231001124 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 1116231001125 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1116231001126 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1116231001127 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1116231001128 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1116231001129 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1116231001130 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1116231001131 acetyl-CoA carboxylase subunit alpha; Provisional; Region: PRK12319 1116231001132 seryl-tRNA synthetase; Provisional; Region: PRK05431 1116231001133 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1116231001134 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 1116231001135 dimer interface [polypeptide binding]; other site 1116231001136 active site 1116231001137 motif 1; other site 1116231001138 motif 2; other site 1116231001139 motif 3; other site 1116231001140 Domain of unknown function (DUF956); Region: DUF956; pfam06115 1116231001141 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1116231001142 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1116231001143 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1116231001144 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 1116231001145 active pocket/dimerization site; other site 1116231001146 active site 1116231001147 phosphorylation site [posttranslational modification] 1116231001148 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 1116231001149 active site 1116231001150 phosphorylation site [posttranslational modification] 1116231001151 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1116231001152 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 1116231001153 active site 1116231001154 motif I; other site 1116231001155 motif II; other site 1116231001156 Protein of unknown function (DUF1361); Region: DUF1361; pfam07099 1116231001157 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1116231001158 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1116231001159 putative acetyltransferase YhhY; Provisional; Region: PRK10140 1116231001160 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1116231001161 Coenzyme A binding pocket [chemical binding]; other site 1116231001162 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1116231001163 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 1116231001164 HIT family signature motif; other site 1116231001165 catalytic residue [active] 1116231001166 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1116231001167 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1116231001168 Walker A/P-loop; other site 1116231001169 ATP binding site [chemical binding]; other site 1116231001170 Q-loop/lid; other site 1116231001171 ABC transporter signature motif; other site 1116231001172 Walker B; other site 1116231001173 D-loop; other site 1116231001174 H-loop/switch region; other site 1116231001175 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 1116231001176 Thiamine kinase and related kinases [Coenzyme transport and metabolism]; Region: ycfN; COG0510 1116231001177 Phosphotransferase enzyme family; Region: APH; pfam01636 1116231001178 substrate binding site [chemical binding]; other site 1116231001179 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 1116231001180 S-adenosylmethionine binding site [chemical binding]; other site 1116231001185 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1116231001186 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1116231001187 putative oligomer interface [polypeptide binding]; other site 1116231001188 putative RNA binding site [nucleotide binding]; other site 1116231001189 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1116231001190 NusA N-terminal domain; Region: NusA_N; pfam08529 1116231001191 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 1116231001192 RNA binding site [nucleotide binding]; other site 1116231001193 homodimer interface [polypeptide binding]; other site 1116231001194 NusA-like KH domain; Region: KH_5; pfam13184 1116231001195 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 1116231001196 G-X-X-G motif; other site 1116231001197 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 1116231001198 putative RNA binding cleft [nucleotide binding]; other site 1116231001199 hypothetical protein; Provisional; Region: PRK07283 1116231001200 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1116231001201 translation initiation factor IF-2; Region: IF-2; TIGR00487 1116231001202 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1116231001203 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1116231001204 G1 box; other site 1116231001205 putative GEF interaction site [polypeptide binding]; other site 1116231001206 GTP/Mg2+ binding site [chemical binding]; other site 1116231001207 Switch I region; other site 1116231001208 G2 box; other site 1116231001209 G3 box; other site 1116231001210 Switch II region; other site 1116231001211 G4 box; other site 1116231001212 G5 box; other site 1116231001213 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 1116231001214 Translation-initiation factor 2; Region: IF-2; pfam11987 1116231001215 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 1116231001216 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1116231001217 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 1116231001218 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 1116231001219 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1116231001220 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1116231001221 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1116231001222 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 1116231001223 metal-binding site [ion binding] 1116231001224 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1116231001225 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 1116231001226 motif II; other site 1116231001227 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 1116231001228 metal-binding site [ion binding] 1116231001229 Predicted membrane protein [Function unknown]; Region: COG2860 1116231001230 UPF0126 domain; Region: UPF0126; pfam03458 1116231001231 UPF0126 domain; Region: UPF0126; pfam03458 1116231001232 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 1116231001233 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1116231001234 active site 1116231001235 motif I; other site 1116231001236 motif II; other site 1116231001237 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 1116231001238 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1116231001239 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1116231001240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 1116231001241 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1116231001242 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1116231001244 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1116231001245 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 1116231001246 active site 1116231001247 dimer interface [polypeptide binding]; other site 1116231001248 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 1116231001249 dimer interface [polypeptide binding]; other site 1116231001250 motif 1; other site 1116231001251 active site 1116231001252 motif 2; other site 1116231001253 motif 3; other site 1116231001254 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1116231001255 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1116231001256 hypothetical protein; Provisional; Region: PRK02539 1116231001257 potential frameshift: common BLAST hit: gi|288904610|ref|YP_003429831.1| transcription antiterminator BglG family 1116231001258 HTH domain; Region: HTH_11; cl17392 1116231001259 potential frameshift: common BLAST hit: gi|325977585|ref|YP_004287301.1| BglG family transcriptional antiterminator 1116231001260 Class I aldolases; Region: Aldolase_Class_I; cl17187 1116231001261 catalytic residue [active] 1116231001262 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1116231001263 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 1116231001264 TPP-binding site [chemical binding]; other site 1116231001265 dimer interface [polypeptide binding]; other site 1116231001266 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 1116231001267 PYR/PP interface [polypeptide binding]; other site 1116231001268 dimer interface [polypeptide binding]; other site 1116231001269 TPP binding site [chemical binding]; other site 1116231001270 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1116231001271 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1116231001272 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1116231001273 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1116231001274 Walker A/P-loop; other site 1116231001275 ATP binding site [chemical binding]; other site 1116231001276 Q-loop/lid; other site 1116231001277 ABC transporter signature motif; other site 1116231001278 Walker B; other site 1116231001279 D-loop; other site 1116231001280 H-loop/switch region; other site 1116231001281 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 1116231001282 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 1116231001283 nucleotide binding site [chemical binding]; other site 1116231001284 homotetrameric interface [polypeptide binding]; other site 1116231001285 putative phosphate binding site [ion binding]; other site 1116231001286 putative allosteric binding site; other site 1116231001287 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1116231001288 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1116231001289 putative catalytic cysteine [active] 1116231001290 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1116231001291 MraW methylase family; Region: Methyltransf_5; pfam01795 1116231001292 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 1116231001293 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1116231001294 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1116231001295 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1116231001296 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 1116231001297 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 1116231001298 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1116231001299 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 1116231001300 Mg++ binding site [ion binding]; other site 1116231001301 putative catalytic motif [active] 1116231001302 putative substrate binding site [chemical binding]; other site 1116231001303 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231001304 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231001305 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 1116231001306 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1116231001307 ATP binding site [chemical binding]; other site 1116231001308 Mg++ binding site [ion binding]; other site 1116231001309 motif III; other site 1116231001310 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 1116231001311 nucleotide binding region [chemical binding]; other site 1116231001312 ATP-binding site [chemical binding]; other site 1116231001313 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1116231001314 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 1116231001315 substrate binding pocket [chemical binding]; other site 1116231001316 membrane-bound complex binding site; other site 1116231001317 hinge residues; other site 1116231001318 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 1116231001319 dimer interface [polypeptide binding]; other site 1116231001320 conserved gate region; other site 1116231001321 putative PBP binding loops; other site 1116231001322 ABC-ATPase subunit interface; other site 1116231001323 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1116231001324 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1116231001325 Walker A/P-loop; other site 1116231001326 ATP binding site [chemical binding]; other site 1116231001327 Q-loop/lid; other site 1116231001328 ABC transporter signature motif; other site 1116231001329 Walker B; other site 1116231001330 D-loop; other site 1116231001331 H-loop/switch region; other site 1116231001332 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 1116231001333 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1116231001334 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1116231001335 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1116231001336 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1116231001337 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 1116231001338 active site 1116231001339 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1116231001340 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 1116231001341 homodimer interface [polypeptide binding]; other site 1116231001342 NAD binding pocket [chemical binding]; other site 1116231001343 ATP binding pocket [chemical binding]; other site 1116231001344 Mg binding site [ion binding]; other site 1116231001345 active-site loop [active] 1116231001346 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 1116231001347 trimer interface [polypeptide binding]; other site 1116231001348 active site 1116231001349 G bulge; other site 1116231001350 Transglycosylase; Region: Transgly; pfam00912 1116231001351 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1116231001352 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1116231001353 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 1116231001354 hypothetical protein; Provisional; Region: PRK13660 1116231001355 cell division protein GpsB; Provisional; Region: PRK14127 1116231001356 DivIVA domain; Region: DivI1A_domain; TIGR03544 1116231001357 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1116231001358 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1116231001359 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 1116231001360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1116231001361 Integrase core domain; Region: rve; pfam00665 1116231001362 Transposase; Region: HTH_Tnp_1; pfam01527 1116231001363 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1116231001364 Helix-turn-helix domain; Region: HTH_28; pfam13518 1116231001365 Winged helix-turn helix; Region: HTH_29; pfam13551 1116231001366 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1116231001367 hypothetical protein; Provisional; Region: PRK00106 1116231001368 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1116231001369 Zn2+ binding site [ion binding]; other site 1116231001370 Mg2+ binding site [ion binding]; other site 1116231001371 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1116231001372 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 1116231001373 catalytic site [active] 1116231001374 G-X2-G-X-G-K; other site 1116231001375 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1116231001376 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1116231001377 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 1116231001378 ATP binding site [chemical binding]; other site 1116231001379 putative Mg++ binding site [ion binding]; other site 1116231001380 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 1116231001381 ATP-binding site [chemical binding]; other site 1116231001383 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1116231001384 NusB family; Region: NusB; pfam01029 1116231001385 putative RNA binding site [nucleotide binding]; other site 1116231001386 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 1116231001387 S-adenosylmethionine binding site [chemical binding]; other site 1116231001388 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 1116231001389 active site 1116231001390 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1116231001391 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1116231001392 active site 1116231001393 ATP binding site [chemical binding]; other site 1116231001394 substrate binding site [chemical binding]; other site 1116231001395 activation loop (A-loop); other site 1116231001396 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 1116231001397 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 1116231001398 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 1116231001399 Predicted membrane protein [Function unknown]; Region: COG4758 1116231001400 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1116231001401 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1116231001402 Histidine kinase; Region: HisKA_3; pfam07730 1116231001403 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 1116231001404 ATP binding site [chemical binding]; other site 1116231001405 Mg2+ binding site [ion binding]; other site 1116231001406 G-X-G motif; other site 1116231001407 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1116231001408 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 1116231001409 active site 1116231001410 phosphorylation site [posttranslational modification] 1116231001411 intermolecular recognition site; other site 1116231001412 dimerization interface [polypeptide binding]; other site 1116231001413 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 1116231001414 DNA binding residues [nucleotide binding] 1116231001415 dimerization interface [polypeptide binding]; other site 1116231001416 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 1116231001417 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1116231001418 active site 1116231001419 motif I; other site 1116231001420 motif II; other site 1116231001421 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 1116231001422 active site 1116231001423 motif I; other site 1116231001424 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1116231001425 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 1116231001426 active site 1116231001427 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 1116231001428 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; cd00164 1116231001429 RNA binding site [nucleotide binding]; other site 1116231001430 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1116231001431 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 1116231001432 dimer interface [polypeptide binding]; other site 1116231001433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231001434 catalytic residue [active] 1116231001435 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1116231001436 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1116231001437 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1116231001438 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 1116231001439 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 1116231001440 ATP binding site [chemical binding]; other site 1116231001441 putative Mg++ binding site [ion binding]; other site 1116231001442 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 1116231001443 nucleotide binding region [chemical binding]; other site 1116231001444 ATP-binding site [chemical binding]; other site 1116231001445 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1116231001446 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1116231001447 active site 1116231001448 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 1116231001449 30S subunit binding site; other site 1116231001450 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 1116231001451 hypothetical protein; Provisional; Region: PRK13662 1116231001452 recombination regulator RecX; Provisional; Region: recX; PRK14135 1116231001453 TRAM domain; Region: TRAM; pfam01938 1116231001454 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1116231001455 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 1116231001456 S-adenosylmethionine binding site [chemical binding]; other site 1116231001457 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1116231001458 similar to Hypothetical protein 1116231001459 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1116231001460 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1116231001461 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1116231001462 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 1116231001463 metal-binding site [ion binding] 1116231001464 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 1116231001465 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1116231001466 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 1116231001467 ligand binding site [chemical binding]; other site 1116231001468 flexible hinge region; other site 1116231001469 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 1116231001470 putative switch regulator; other site 1116231001471 non-specific DNA interactions [nucleotide binding]; other site 1116231001472 DNA binding site [nucleotide binding] 1116231001473 sequence specific DNA binding site [nucleotide binding]; other site 1116231001474 putative cAMP binding site [chemical binding]; other site 1116231001475 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1116231001476 Integrase core domain; Region: rve; pfam00665 1116231001477 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1116231001478 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 1116231001479 ligand binding site [chemical binding]; other site 1116231001480 flexible hinge region; other site 1116231001481 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 1116231001482 putative switch regulator; other site 1116231001483 non-specific DNA interactions [nucleotide binding]; other site 1116231001484 DNA binding site [nucleotide binding] 1116231001485 sequence specific DNA binding site [nucleotide binding]; other site 1116231001486 putative cAMP binding site [chemical binding]; other site 1116231001487 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 1116231001488 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 1116231001489 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 1116231001490 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1116231001491 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1116231001492 active site 1116231001493 dimer interface [polypeptide binding]; other site 1116231001494 catalytic residues [active] 1116231001495 effector binding site; other site 1116231001496 R2 peptide binding site; other site 1116231001497 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1116231001498 dimer interface [polypeptide binding]; other site 1116231001499 putative radical transfer pathway; other site 1116231001500 diiron center [ion binding]; other site 1116231001501 tyrosyl radical; other site 1116231001502 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1116231001503 dimer interface [polypeptide binding]; other site 1116231001504 catalytic triad [active] 1116231001505 peroxidatic and resolving cysteines [active] 1116231001506 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1116231001507 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1116231001508 dimer interface [polypeptide binding]; other site 1116231001509 putative radical transfer pathway; other site 1116231001510 diiron center [ion binding]; other site 1116231001511 tyrosyl radical; other site 1116231001513 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1116231001514 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1116231001515 Coenzyme A binding pocket [chemical binding]; other site 1116231001516 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 1116231001517 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1116231001518 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 1116231001519 Substrate-binding site [chemical binding]; other site 1116231001520 Substrate specificity [chemical binding]; other site 1116231001523 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 1116231001524 hypothetical protein; Provisional; Region: PRK07758 1116231001525 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1116231001526 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1116231001527 AAA domain; Region: AAA_18; pfam13238 1116231001528 AAA domain; Region: AAA_17; cl17253 1116231001529 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1116231001530 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1116231001531 active site 1116231001532 HIGH motif; other site 1116231001533 nucleotide binding site [chemical binding]; other site 1116231001534 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1116231001535 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1116231001536 active site 1116231001537 KMSKS motif; other site 1116231001538 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1116231001539 tRNA binding surface [nucleotide binding]; other site 1116231001540 anticodon binding site; other site 1116231001541 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1116231001543 Protein of unknown function (DUF419); Region: DUF419; cl15265 1116231001544 similar to ABC transporter membrane-spanning permease-macrolide efflux 1116231001545 Asparagine synthetase A [Amino acid transport and metabolism]; Region: AsnA; COG2502 1116231001546 motif 1; other site 1116231001547 dimer interface [polypeptide binding]; other site 1116231001548 active site 1116231001549 motif 2; other site 1116231001550 motif 3; other site 1116231001551 potential frameshift: common BLAST hit: gi|336063784|ref|YP_004558643.1| signal peptide containing protein 1116231001552 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1116231001553 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 1116231001554 S-adenosylmethionine binding site [chemical binding]; other site 1116231001555 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1116231001556 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1116231001557 active site 1116231001558 (T/H)XGH motif; other site 1116231001559 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1116231001560 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 1116231001561 protein binding site [polypeptide binding]; other site 1116231001562 Protein of unknown function (DUF3923); Region: DUF3923; pfam13061 1116231001563 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1116231001564 Helix-turn-helix domain; Region: HTH_38; pfam13936 1116231001565 potential frameshift: common BLAST hit: gi|288904754|ref|YP_003429975.1| aquaporin Z-water channel protein 1116231001566 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; cl00200 1116231001567 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; cl00200 1116231001568 amphipathic channel; other site 1116231001569 Asn-Pro-Ala signature motifs; other site 1116231001570 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1116231001571 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1116231001572 active site 1116231001573 metal binding site [ion binding]; metal-binding site 1116231001574 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1116231001575 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 1116231001576 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 1116231001577 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 1116231001578 FeS/SAM binding site; other site 1116231001579 VanZ like family; Region: VanZ; pfam04892 1116231001580 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1116231001581 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 1116231001582 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231001583 Walker A/P-loop; other site 1116231001584 ATP binding site [chemical binding]; other site 1116231001585 Q-loop/lid; other site 1116231001586 ABC transporter signature motif; other site 1116231001587 Walker B; other site 1116231001588 D-loop; other site 1116231001589 H-loop/switch region; other site 1116231001590 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1116231001591 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1116231001592 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1116231001593 Walker A/P-loop; other site 1116231001594 ATP binding site [chemical binding]; other site 1116231001595 Q-loop/lid; other site 1116231001596 ABC transporter signature motif; other site 1116231001597 Walker B; other site 1116231001598 D-loop; other site 1116231001599 H-loop/switch region; other site 1116231001600 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1116231001601 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1116231001602 Walker A/P-loop; other site 1116231001603 ATP binding site [chemical binding]; other site 1116231001604 Q-loop/lid; other site 1116231001605 ABC transporter signature motif; other site 1116231001606 Walker B; other site 1116231001607 D-loop; other site 1116231001608 H-loop/switch region; other site 1116231001609 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1116231001610 Histidine kinase; Region: HisKA_3; pfam07730 1116231001611 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1116231001612 Mg2+ binding site [ion binding]; other site 1116231001613 G-X-G motif; other site 1116231001614 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1116231001615 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 1116231001616 active site 1116231001617 phosphorylation site [posttranslational modification] 1116231001618 intermolecular recognition site; other site 1116231001619 dimerization interface [polypeptide binding]; other site 1116231001620 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 1116231001621 DNA binding residues [nucleotide binding] 1116231001622 dimerization interface [polypeptide binding]; other site 1116231001623 Predicted membrane protein [Function unknown]; Region: COG3371 1116231001624 Chorismate mutase type II; Region: CM_2; smart00830 1116231001625 anthranilate synthase component I; Provisional; Region: PRK13570 1116231001626 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1116231001627 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1116231001628 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1116231001629 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1116231001630 glutamine binding [chemical binding]; other site 1116231001631 catalytic triad [active] 1116231001632 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1116231001633 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1116231001634 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1116231001635 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 1116231001636 active site 1116231001637 ribulose/triose binding site [chemical binding]; other site 1116231001638 phosphate binding site [ion binding]; other site 1116231001639 substrate (anthranilate) binding pocket [chemical binding]; other site 1116231001640 product (indole) binding pocket [chemical binding]; other site 1116231001641 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 1116231001642 active site 1116231001643 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1116231001644 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 1116231001645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231001646 catalytic residue [active] 1116231001647 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 1116231001648 substrate binding site [chemical binding]; other site 1116231001649 active site 1116231001650 catalytic residues [active] 1116231001651 heterodimer interface [polypeptide binding]; other site 1116231001652 manganese transport protein MntH; Reviewed; Region: PRK00701 1116231001653 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1116231001654 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 1116231001655 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1116231001656 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1116231001657 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1116231001658 dimerization interface [polypeptide binding]; other site 1116231001659 DPS ferroxidase diiron center [ion binding]; other site 1116231001660 ion pore; other site 1116231001661 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 1116231001662 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1116231001663 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1116231001664 nucleotide binding site [chemical binding]; other site 1116231001665 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 1116231001666 active site residue [active] 1116231001667 potential frameshift: common BLAST hit: gi|325977733|ref|YP_004287449.1| alpha-galactosidase 1116231001668 Melibiase; Region: Melibiase; pfam02065 1116231001669 potential frameshift: common BLAST hit: gi|325977733|ref|YP_004287449.1| alpha-galactosidase 1116231001670 Melibiase; Region: Melibiase; pfam02065 1116231001671 potential frameshift: common BLAST hit: gi|325977733|ref|YP_004287449.1| alpha-galactosidase 1116231001672 Melibiase; Region: Melibiase; pfam02065 1116231001673 Immunoglobulin domain; Region: Ig; cl11960 1116231001675 similar to Hypothetical protein 1116231001676 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1116231001677 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1116231001678 G1 box; other site 1116231001679 putative GEF interaction site [polypeptide binding]; other site 1116231001680 GTP/Mg2+ binding site [chemical binding]; other site 1116231001681 Switch I region; other site 1116231001682 G2 box; other site 1116231001683 G3 box; other site 1116231001684 Switch II region; other site 1116231001685 G4 box; other site 1116231001686 G5 box; other site 1116231001687 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 1116231001688 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 1116231001689 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 1116231001690 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1116231001691 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 1116231001692 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1116231001693 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1116231001694 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1116231001695 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 1116231001696 homodimer interface [polypeptide binding]; other site 1116231001697 active site 1116231001698 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1116231001699 Cell division protein FtsQ; Region: FtsQ; pfam03799 1116231001700 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1116231001701 Cell division protein FtsA; Region: FtsA; smart00842 1116231001702 Cell division protein FtsA; Region: FtsA; pfam14450 1116231001703 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 1116231001704 cell division protein FtsZ; Validated; Region: PRK09330 1116231001705 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 1116231001706 nucleotide binding site [chemical binding]; other site 1116231001707 SulA interaction site; other site 1116231001708 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1116231001709 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1116231001710 catalytic residue [active] 1116231001711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1116231001712 YGGT family; Region: YGGT; pfam02325 1116231001713 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1116231001714 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 1116231001715 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 1116231001716 RNA binding surface [nucleotide binding]; other site 1116231001717 DivIVA protein; Region: DivIVA; pfam05103 1116231001718 DivIVA domain; Region: DivI1A_domain; TIGR03544 1116231001719 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1116231001720 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1116231001721 active site 1116231001722 HIGH motif; other site 1116231001723 nucleotide binding site [chemical binding]; other site 1116231001724 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1116231001725 active site 1116231001726 KMSKS motif; other site 1116231001727 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1116231001728 tRNA binding surface [nucleotide binding]; other site 1116231001729 anticodon binding site; other site 1116231001730 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 1116231001731 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 1116231001732 nudix motif; other site 1116231001733 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1116231001734 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 1116231001735 Walker A motif; other site 1116231001736 ATP binding site [chemical binding]; other site 1116231001737 Walker B motif; other site 1116231001738 arginine finger; other site 1116231001739 UvrB/uvrC motif; Region: UVR; pfam02151 1116231001740 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 1116231001741 Walker A motif; other site 1116231001742 ATP binding site [chemical binding]; other site 1116231001743 Walker B motif; other site 1116231001744 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1116231001745 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 1116231001747 ornithine carbamoyltransferase; Validated; Region: PRK02102 1116231001748 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1116231001749 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1116231001750 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 1116231001751 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1116231001752 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 1116231001753 dimer interface [polypeptide binding]; other site 1116231001754 conserved gate region; other site 1116231001755 putative PBP binding loops; other site 1116231001756 ABC-ATPase subunit interface; other site 1116231001757 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1116231001758 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1116231001759 Walker A/P-loop; other site 1116231001760 ATP binding site [chemical binding]; other site 1116231001761 Q-loop/lid; other site 1116231001762 ABC transporter signature motif; other site 1116231001763 Walker B; other site 1116231001764 D-loop; other site 1116231001765 H-loop/switch region; other site 1116231001766 FeoA domain; Region: FeoA; pfam04023 1116231001767 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1116231001768 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1116231001769 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1116231001770 G1 box; other site 1116231001771 GTP/Mg2+ binding site [chemical binding]; other site 1116231001772 Switch I region; other site 1116231001773 G2 box; other site 1116231001774 G3 box; other site 1116231001775 Switch II region; other site 1116231001776 G4 box; other site 1116231001777 G5 box; other site 1116231001778 Nucleoside recognition; Region: Gate; pfam07670 1116231001779 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1116231001780 Nucleoside recognition; Region: Gate; pfam07670 1116231001781 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 1116231001782 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1116231001783 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1116231001784 homodimer interface [polypeptide binding]; other site 1116231001785 NADP binding site [chemical binding]; other site 1116231001786 substrate binding site [chemical binding]; other site 1116231001787 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 1116231001788 putative substrate binding site [chemical binding]; other site 1116231001789 putative ATP binding site [chemical binding]; other site 1116231001790 potential frameshift: common BLAST hit: gi|288904836|ref|YP_003430058.1| cell wall associated protein 1116231001791 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 1116231001792 Bacterial SH3 domain; Region: SH3_5; pfam08460 1116231001793 potential frameshift: common BLAST hit: gi|288904836|ref|YP_003430058.1| cell wall associated protein 1116231001794 Bacterial SH3 domain; Region: SH3_5; pfam08460 1116231001795 potential frameshift: common BLAST hit: gi|288904836|ref|YP_003430058.1| cell wall associated protein 1116231001796 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231001797 Bacterial SH3 domain; Region: SH3_5; pfam08460 1116231001799 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1116231001800 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 1116231001801 generic binding surface II; other site 1116231001802 generic binding surface I; other site 1116231001803 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1116231001804 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1116231001805 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1116231001806 substrate binding pocket [chemical binding]; other site 1116231001807 chain length determination region; other site 1116231001808 substrate-Mg2+ binding site; other site 1116231001809 catalytic residues [active] 1116231001810 aspartate-rich region 1; other site 1116231001811 active site lid residues [active] 1116231001812 aspartate-rich region 2; other site 1116231001813 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1116231001814 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 1116231001815 RNA binding surface [nucleotide binding]; other site 1116231001816 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1116231001817 Arginine repressor [Transcription]; Region: ArgR; COG1438 1116231001818 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1116231001819 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1116231001820 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1116231001821 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1116231001822 Walker A/P-loop; other site 1116231001823 ATP binding site [chemical binding]; other site 1116231001824 Q-loop/lid; other site 1116231001825 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1116231001826 ABC transporter signature motif; other site 1116231001827 Walker B; other site 1116231001828 D-loop; other site 1116231001829 H-loop/switch region; other site 1116231001830 EDD domain protein, DegV family; Region: DegV; TIGR00762 1116231001831 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1116231001832 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 1116231001833 active site 1116231001834 catalytic triad [active] 1116231001835 oxyanion hole [active] 1116231001836 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 1116231001837 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1116231001838 IHF dimer interface [polypeptide binding]; other site 1116231001839 IHF - DNA interface [nucleotide binding]; other site 1116231001840 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 1116231001841 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 1116231001842 POT family; Region: PTR2; cl17359 1116231001843 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1116231001844 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 1116231001845 active site 1116231001846 FMN binding site [chemical binding]; other site 1116231001847 substrate binding site [chemical binding]; other site 1116231001848 catalytic residues [active] 1116231001849 homodimer interface [polypeptide binding]; other site 1116231001851 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 1116231001852 dimerization interface [polypeptide binding]; other site 1116231001853 putative DNA binding site [nucleotide binding]; other site 1116231001854 putative Zn2+ binding site [ion binding]; other site 1116231001855 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1116231001856 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1116231001857 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 1116231001858 motif I; other site 1116231001859 motif II; other site 1116231001860 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1116231001861 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 1116231001862 catalytic core [active] 1116231001863 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 1116231001864 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1116231001865 HTH domain; Region: HTH_11; pfam08279 1116231001866 3H domain; Region: 3H; pfam02829 1116231001867 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1116231001868 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1116231001869 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1116231001870 recombination protein RecR; Reviewed; Region: recR; PRK00076 1116231001871 RecR protein; Region: RecR; pfam02132 1116231001872 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 1116231001873 putative active site [active] 1116231001874 putative metal-binding site [ion binding]; other site 1116231001875 tetramer interface [polypeptide binding]; other site 1116231001876 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1116231001877 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1116231001878 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1116231001879 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 1116231001880 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1116231001881 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1116231001882 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1116231001883 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1116231001885 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1116231001886 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1116231001887 G1 box; other site 1116231001888 putative GEF interaction site [polypeptide binding]; other site 1116231001889 GTP/Mg2+ binding site [chemical binding]; other site 1116231001890 Switch I region; other site 1116231001891 G2 box; other site 1116231001892 G3 box; other site 1116231001893 Switch II region; other site 1116231001894 G4 box; other site 1116231001895 G5 box; other site 1116231001896 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 1116231001897 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 1116231001898 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1116231001899 ATP binding site [chemical binding]; other site 1116231001900 Mg++ binding site [ion binding]; other site 1116231001901 motif III; other site 1116231001902 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 1116231001903 nucleotide binding region [chemical binding]; other site 1116231001904 ATP-binding site [chemical binding]; other site 1116231001905 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1116231001906 GIY-YIG motif/motif A; other site 1116231001907 putative active site [active] 1116231001908 putative metal binding site [ion binding]; other site 1116231001909 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1116231001910 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 1116231001911 S-adenosylmethionine binding site [chemical binding]; other site 1116231001912 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1116231001913 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1116231001914 putative acyl-acceptor binding pocket; other site 1116231001915 SLBB domain; Region: SLBB; pfam10531 1116231001916 comEA protein; Region: comE; TIGR01259 1116231001917 Helix-hairpin-helix motif; Region: HHH; pfam00633 1116231001918 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1116231001919 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1116231001920 Competence protein; Region: Competence; pfam03772 1116231001921 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1116231001922 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1116231001923 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1116231001924 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1116231001925 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1116231001926 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1116231001927 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1116231001928 hypothetical protein; Validated; Region: PRK00110 1116231001929 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1116231001930 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1116231001932 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1116231001933 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 1116231001934 active site 1116231001935 trimer interface [polypeptide binding]; other site 1116231001936 allosteric site; other site 1116231001937 active site lid [active] 1116231001938 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1116231001939 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1116231001940 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 1116231001941 RNA binding surface [nucleotide binding]; other site 1116231001942 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1116231001943 active site 1116231001944 uracil binding [chemical binding]; other site 1116231001945 Competence protein CoiA-like family; Region: CoiA; pfam06054 1116231001946 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 1116231001947 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1116231001948 active site 1116231001949 Zn binding site [ion binding]; other site 1116231001951 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1116231001952 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 1116231001953 motif II; other site 1116231001954 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1116231001955 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 1116231001956 S-adenosylmethionine binding site [chemical binding]; other site 1116231001957 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 1116231001958 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1116231001959 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 1116231001960 motif 1; other site 1116231001961 active site 1116231001962 motif 2; other site 1116231001963 motif 3; other site 1116231001964 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1116231001965 DHHA1 domain; Region: DHHA1; pfam02272 1116231001966 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1116231001968 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1116231001969 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 1116231001970 putative active site [active] 1116231001971 catalytic triad [active] 1116231001972 putative dimer interface [polypeptide binding]; other site 1116231001973 transaminase; Reviewed; Region: PRK08068 1116231001974 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 1116231001975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231001976 homodimer interface [polypeptide binding]; other site 1116231001977 catalytic residue [active] 1116231001978 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1116231001979 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1116231001980 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 1116231001981 heterotetramer interface [polypeptide binding]; other site 1116231001982 active site pocket [active] 1116231001983 cleavage site 1116231001984 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 1116231001985 nucleotide binding site [chemical binding]; other site 1116231001986 N-acetyl-L-glutamate binding site [chemical binding]; other site 1116231001987 acetylornithine aminotransferase; Provisional; Region: PRK04260 1116231001988 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1116231001989 inhibitor-cofactor binding pocket; inhibition site 1116231001990 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231001991 catalytic residue [active] 1116231001992 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1116231001993 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 1116231001994 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 1116231001995 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1116231001996 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1116231001997 dimer interface [polypeptide binding]; other site 1116231001998 putative radical transfer pathway; other site 1116231001999 diiron center [ion binding]; other site 1116231002000 tyrosyl radical; other site 1116231002001 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 1116231002002 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1116231002003 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1116231002004 active site 1116231002005 dimer interface [polypeptide binding]; other site 1116231002006 catalytic residues [active] 1116231002007 effector binding site; other site 1116231002008 R2 peptide binding site; other site 1116231002009 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 1116231002010 catalytic residues [active] 1116231002011 aconitate hydratase; Validated; Region: PRK09277 1116231002012 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1116231002013 substrate binding site [chemical binding]; other site 1116231002014 ligand binding site [chemical binding]; other site 1116231002015 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1116231002016 substrate binding site [chemical binding]; other site 1116231002017 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 1116231002018 dimer interface [polypeptide binding]; other site 1116231002019 Citrate synthase; Region: Citrate_synt; pfam00285 1116231002020 active site 1116231002021 citrylCoA binding site [chemical binding]; other site 1116231002022 oxalacetate/citrate binding site [chemical binding]; other site 1116231002023 coenzyme A binding site [chemical binding]; other site 1116231002024 catalytic triad [active] 1116231002025 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1116231002026 isocitrate dehydrogenase; Validated; Region: PRK07362 1116231002027 Predicted membrane protein [Function unknown]; Region: COG4905 1116231002028 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 1116231002030 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1116231002031 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1116231002032 DNA binding site [nucleotide binding] 1116231002033 domain linker motif; other site 1116231002034 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1116231002035 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1116231002036 putative active site [active] 1116231002037 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 1116231002038 homotrimer interaction site [polypeptide binding]; other site 1116231002039 putative active site [active] 1116231002040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 1116231002041 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1116231002042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 1116231002043 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1116231002044 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 1116231002045 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1116231002046 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1116231002047 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1116231002048 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 1116231002050 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1116231002051 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1116231002052 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 1116231002053 dimer interface [polypeptide binding]; other site 1116231002054 phosphate binding site [ion binding]; other site 1116231002055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1116231002056 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1116231002057 Peptidase family C69; Region: Peptidase_C69; pfam03577 1116231002058 potential frameshift: common BLAST hit: gi|325977897|ref|YP_004287613.1| MutR family transcriptional regulator 1116231002059 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1116231002060 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1116231002061 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1116231002062 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 1116231002063 metal binding site [ion binding]; metal-binding site 1116231002064 YodA lipocalin-like domain; Region: YodA; cl01365 1116231002067 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1116231002068 HTH-like domain; Region: HTH_21; pfam13276 1116231002069 Integrase core domain; Region: rve; pfam00665 1116231002070 Integrase core domain; Region: rve_3; cl15866 1116231002071 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1116231002073 Integrase core domain; Region: rve; pfam00665 1116231002074 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1116231002075 Helix-turn-helix domain; Region: HTH_38; pfam13936 1116231002076 DNA-binding interface [nucleotide binding]; DNA binding site 1116231002077 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1116231002078 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1116231002079 DHH family; Region: DHH; pfam01368 1116231002080 DHHA1 domain; Region: DHHA1; pfam02272 1116231002081 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1116231002082 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1116231002083 dimerization domain swap beta strand [polypeptide binding]; other site 1116231002084 regulatory protein interface [polypeptide binding]; other site 1116231002085 active site 1116231002086 regulatory phosphorylation site [posttranslational modification]; other site 1116231002087 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1116231002088 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1116231002089 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1116231002090 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1116231002091 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 1116231002092 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 1116231002093 tetrameric interface [polypeptide binding]; other site 1116231002094 activator binding site; other site 1116231002095 NADP binding site [chemical binding]; other site 1116231002096 substrate binding site [chemical binding]; other site 1116231002097 catalytic residues [active] 1116231002100 potential frameshift: common BLAST hit: gi|325977920|ref|YP_004287636.1| phosphoenolpyruvate carboxykinase 1116231002101 potential frameshift: common BLAST hit: gi|336063949|ref|YP_004558808.1| ATP-dependent phosphoenolpyruvate carboxykinase 1116231002102 potential frameshift: common BLAST hit: gi|325977920|ref|YP_004287636.1| phosphoenolpyruvate carboxykinase 1116231002103 potential frameshift: common BLAST hit: gi|325977921|ref|YP_004287637.1| lactocepin 1116231002104 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 1116231002105 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1116231002106 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 1116231002107 ATP binding site [chemical binding]; other site 1116231002108 putative Mg++ binding site [ion binding]; other site 1116231002109 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 1116231002110 nucleotide binding region [chemical binding]; other site 1116231002111 ATP-binding site [chemical binding]; other site 1116231002112 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1116231002113 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 1116231002114 Sugar specificity; other site 1116231002115 Pyrimidine base specificity; other site 1116231002116 ATP-binding site [chemical binding]; other site 1116231002117 2-isopropylmalate synthase; Validated; Region: PRK00915 1116231002118 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1116231002119 active site 1116231002120 catalytic residues [active] 1116231002121 metal binding site [ion binding]; metal-binding site 1116231002122 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1116231002123 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1116231002124 tartrate dehydrogenase; Region: TTC; TIGR02089 1116231002125 Predicted membrane protein [Function unknown]; Region: COG3326 1116231002126 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1116231002127 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1116231002128 substrate binding site [chemical binding]; other site 1116231002129 ligand binding site [chemical binding]; other site 1116231002130 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1116231002131 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1116231002132 substrate binding site [chemical binding]; other site 1116231002133 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1116231002134 GAF domain; Region: GAF_2; pfam13185 1116231002135 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1116231002136 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 1116231002137 Walker A motif; other site 1116231002138 ATP binding site [chemical binding]; other site 1116231002139 Walker B motif; other site 1116231002140 arginine finger; other site 1116231002141 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1116231002142 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1116231002143 Transposase; Region: HTH_Tnp_1; cl17663 1116231002144 putative transposase OrfB; Reviewed; Region: PHA02517 1116231002145 HTH-like domain; Region: HTH_21; pfam13276 1116231002146 Integrase core domain; Region: rve; pfam00665 1116231002147 Integrase core domain; Region: rve_2; pfam13333 1116231002148 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 1116231002149 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1116231002150 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1116231002151 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1116231002152 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1116231002153 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1116231002154 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1116231002155 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1116231002156 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1116231002157 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1116231002158 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 1116231002159 hinge; other site 1116231002160 active site 1116231002161 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1116231002162 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1116231002163 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1116231002164 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1116231002165 DNA-binding site [nucleotide binding]; DNA binding site 1116231002166 DRTGG domain; Region: DRTGG; pfam07085 1116231002167 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 1116231002168 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 1116231002169 active site 1116231002170 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1116231002171 Predicted membrane protein [Function unknown]; Region: COG2246 1116231002172 GtrA-like protein; Region: GtrA; pfam04138 1116231002173 Predicted membrane protein [Function unknown]; Region: COG4708 1116231002174 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1116231002175 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 1116231002176 nucleotide binding pocket [chemical binding]; other site 1116231002177 K-X-D-G motif; other site 1116231002178 catalytic site [active] 1116231002179 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1116231002180 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1116231002181 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 1116231002182 Dimer interface [polypeptide binding]; other site 1116231002183 BRCT sequence motif; other site 1116231002184 putative lipid kinase; Reviewed; Region: PRK13055 1116231002185 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1116231002187 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231002188 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231002190 F0F1 ATP synthase subunit C; Provisional; Region: PRK13467 1116231002191 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1116231002192 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1116231002193 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1116231002194 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1116231002195 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1116231002196 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1116231002197 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1116231002198 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1116231002199 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 1116231002200 beta subunit interaction interface [polypeptide binding]; other site 1116231002201 Walker A motif; other site 1116231002202 ATP binding site [chemical binding]; other site 1116231002203 Walker B motif; other site 1116231002204 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1116231002205 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1116231002206 core domain interface [polypeptide binding]; other site 1116231002207 delta subunit interface [polypeptide binding]; other site 1116231002208 epsilon subunit interface [polypeptide binding]; other site 1116231002209 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1116231002210 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1116231002211 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 1116231002212 alpha subunit interaction interface [polypeptide binding]; other site 1116231002213 Walker A motif; other site 1116231002214 ATP binding site [chemical binding]; other site 1116231002215 Walker B motif; other site 1116231002216 inhibitor binding site; inhibition site 1116231002217 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1116231002218 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1116231002219 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1116231002220 gamma subunit interface [polypeptide binding]; other site 1116231002221 epsilon subunit interface [polypeptide binding]; other site 1116231002222 LBP interface [polypeptide binding]; other site 1116231002223 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 1116231002224 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1116231002225 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 1116231002226 hinge; other site 1116231002227 active site 1116231002228 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 1116231002229 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1116231002230 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; pfam01223 1116231002231 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1116231002232 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1116231002233 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 1116231002234 dimer interface [polypeptide binding]; other site 1116231002235 motif 1; other site 1116231002236 active site 1116231002237 motif 2; other site 1116231002238 motif 3; other site 1116231002239 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1116231002240 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1116231002241 Coenzyme A binding pocket [chemical binding]; other site 1116231002242 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1116231002243 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 1116231002244 putative tRNA-binding site [nucleotide binding]; other site 1116231002245 B3/4 domain; Region: B3_4; pfam03483 1116231002246 tRNA synthetase B5 domain; Region: B5; smart00874 1116231002247 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 1116231002248 dimer interface [polypeptide binding]; other site 1116231002249 motif 1; other site 1116231002250 motif 3; other site 1116231002251 motif 2; other site 1116231002252 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1116231002253 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 1116231002254 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1116231002255 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1116231002256 Part of AAA domain; Region: AAA_19; pfam13245 1116231002257 Family description; Region: UvrD_C_2; pfam13538 1116231002258 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1116231002259 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1116231002260 substrate binding site [chemical binding]; other site 1116231002261 THF binding site; other site 1116231002262 zinc-binding site [ion binding]; other site 1116231002263 hypothetical protein; Provisional; Region: PRK07329 1116231002264 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1116231002265 active site 1116231002266 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 1116231002267 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1116231002268 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1116231002269 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1116231002270 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1116231002271 HflX GTPase family; Region: HflX; cd01878 1116231002272 G1 box; other site 1116231002273 GTP/Mg2+ binding site [chemical binding]; other site 1116231002274 Switch I region; other site 1116231002275 G2 box; other site 1116231002276 G3 box; other site 1116231002277 Switch II region; other site 1116231002278 G4 box; other site 1116231002279 G5 box; other site 1116231002280 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1116231002281 ribonuclease Z; Region: RNase_Z; TIGR02651 1116231002282 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1116231002283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1116231002284 NAD(P) binding site [chemical binding]; other site 1116231002285 active site 1116231002286 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1116231002287 DHH family; Region: DHH; pfam01368 1116231002288 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; pfam10141 1116231002289 CAAX protease self-immunity; Region: Abi; pfam02517 1116231002291 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1116231002292 active site 1116231002293 Homoserine O-succinyltransferase; Region: HTS; pfam04204 1116231002294 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1116231002295 proposed active site lysine [active] 1116231002296 conserved cys residue [active] 1116231002297 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1116231002298 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1116231002299 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1116231002300 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1116231002301 minor groove reading motif; other site 1116231002302 helix-hairpin-helix signature motif; other site 1116231002303 substrate binding pocket [chemical binding]; other site 1116231002304 active site 1116231002305 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1116231002306 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1116231002307 Family of unknown function (DUF633); Region: DUF633; pfam04816 1116231002308 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1116231002309 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1116231002310 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1116231002311 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1116231002312 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1116231002313 substrate binding site; other site 1116231002314 tetramer interface; other site 1116231002315 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1116231002316 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1116231002317 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1116231002318 NAD binding site [chemical binding]; other site 1116231002319 substrate binding site [chemical binding]; other site 1116231002320 homodimer interface [polypeptide binding]; other site 1116231002321 active site 1116231002322 HD domain; Region: HD_4; pfam13328 1116231002323 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 1116231002324 putative active site [active] 1116231002325 nucleotide binding site [chemical binding]; other site 1116231002326 nudix motif; other site 1116231002327 putative metal binding site [ion binding]; other site 1116231002328 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1116231002329 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1116231002330 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 1116231002331 TPR motif; other site 1116231002332 binding surface 1116231002333 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1116231002334 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 1116231002335 binding surface 1116231002336 TPR motif; other site 1116231002337 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 1116231002338 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 1116231002339 dimerization interface [polypeptide binding]; other site 1116231002340 putative DNA binding site [nucleotide binding]; other site 1116231002341 putative Zn2+ binding site [ion binding]; other site 1116231002342 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1116231002343 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 1116231002344 putative active site [active] 1116231002345 putative FMN binding site [chemical binding]; other site 1116231002346 putative substrate binding site [chemical binding]; other site 1116231002347 putative catalytic residue [active] 1116231002348 acetolactate synthase; Reviewed; Region: PRK08617 1116231002349 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1116231002350 PYR/PP interface [polypeptide binding]; other site 1116231002351 dimer interface [polypeptide binding]; other site 1116231002352 TPP binding site [chemical binding]; other site 1116231002353 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1116231002354 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1116231002355 TPP-binding site [chemical binding]; other site 1116231002356 Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AlsD; COG3527 1116231002357 amino acid transporter; Region: 2A0306; TIGR00909 1116231002358 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1116231002359 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1116231002360 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1116231002361 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1116231002362 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1116231002363 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1116231002364 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 1116231002365 dimerization interface [polypeptide binding]; other site 1116231002366 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1116231002367 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1116231002368 Walker A/P-loop; other site 1116231002369 ATP binding site [chemical binding]; other site 1116231002370 Q-loop/lid; other site 1116231002371 ABC transporter signature motif; other site 1116231002372 Walker B; other site 1116231002373 D-loop; other site 1116231002374 H-loop/switch region; other site 1116231002375 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1116231002376 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 1116231002377 dimer interface [polypeptide binding]; other site 1116231002378 conserved gate region; other site 1116231002379 putative PBP binding loops; other site 1116231002380 ABC-ATPase subunit interface; other site 1116231002381 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 1116231002382 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1116231002383 substrate binding pocket [chemical binding]; other site 1116231002384 membrane-bound complex binding site; other site 1116231002385 hinge residues; other site 1116231002387 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 1116231002388 putative metal binding site [ion binding]; other site 1116231002389 putative dimer interface [polypeptide binding]; other site 1116231002390 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 1116231002391 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1116231002392 zinc binding site [ion binding]; other site 1116231002393 putative ligand binding site [chemical binding]; other site 1116231002394 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 1116231002395 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1116231002396 TM-ABC transporter signature motif; other site 1116231002397 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1116231002398 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231002399 Walker A/P-loop; other site 1116231002400 ATP binding site [chemical binding]; other site 1116231002401 Q-loop/lid; other site 1116231002402 ABC transporter signature motif; other site 1116231002403 Walker B; other site 1116231002404 D-loop; other site 1116231002405 H-loop/switch region; other site 1116231002406 type VII secretion effector, SACOL2603 family; Region: T7SS_SACOL2603; TIGR04197 1116231002407 similar to Hypothetical protein 1116231002408 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1116231002409 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1116231002410 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1116231002411 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 1116231002412 active site 1116231002413 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1116231002414 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1116231002415 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1116231002416 ABC transporter; Region: ABC_tran_2; pfam12848 1116231002417 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1116231002418 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1116231002419 MarR family; Region: MarR_2; pfam12802 1116231002420 similar to ABC transporter ATP-binding protein/permease 1116231002423 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1116231002424 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 1116231002425 tetramer interface [polypeptide binding]; other site 1116231002426 TPP-binding site [chemical binding]; other site 1116231002427 heterodimer interface [polypeptide binding]; other site 1116231002428 phosphorylation loop region [posttranslational modification] 1116231002429 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1116231002430 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 1116231002431 alpha subunit interface [polypeptide binding]; other site 1116231002432 TPP binding site [chemical binding]; other site 1116231002433 heterodimer interface [polypeptide binding]; other site 1116231002434 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1116231002435 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1116231002436 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 1116231002437 E3 interaction surface; other site 1116231002438 lipoyl attachment site [posttranslational modification]; other site 1116231002439 e3 binding domain; Region: E3_binding; pfam02817 1116231002440 e3 binding domain; Region: E3_binding; pfam02817 1116231002441 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1116231002442 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 1116231002443 E3 interaction surface; other site 1116231002444 lipoyl attachment site [posttranslational modification]; other site 1116231002445 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 1116231002446 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1116231002447 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1116231002448 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231002449 ABC transporter signature motif; other site 1116231002450 Walker B; other site 1116231002451 D-loop; other site 1116231002452 similar to Iron compound ABC uptake transporter substrate-binding protein PiuA 1116231002455 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1116231002456 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1116231002457 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1116231002460 hypothetical protein; Provisional; Region: PRK04143 1116231002461 ADP-ribose binding site [chemical binding]; other site 1116231002462 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 1116231002463 putative homotetramer interface [polypeptide binding]; other site 1116231002464 putative homodimer interface [polypeptide binding]; other site 1116231002465 putative allosteric switch controlling residues; other site 1116231002466 putative metal binding site [ion binding]; other site 1116231002467 putative homodimer-homodimer interface [polypeptide binding]; other site 1116231002468 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 1116231002469 active site residue [active] 1116231002470 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1116231002471 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 1116231002472 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1116231002473 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1116231002474 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1116231002475 active site residue [active] 1116231002476 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 1116231002477 active site residue [active] 1116231002478 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1116231002479 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1116231002480 Zn2+ binding site [ion binding]; other site 1116231002481 Mg2+ binding site [ion binding]; other site 1116231002482 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1116231002483 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1116231002484 Coenzyme A binding pocket [chemical binding]; other site 1116231002485 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1116231002486 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1116231002487 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1116231002488 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1116231002489 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 1116231002490 motif II; other site 1116231002491 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1116231002492 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 1116231002493 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1116231002494 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1116231002496 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1116231002498 Flagellin N-methylase; Region: FliB; pfam03692 1116231002499 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 1116231002500 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 1116231002501 motif II; other site 1116231002502 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 1116231002503 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1116231002504 ligand binding site [chemical binding]; other site 1116231002505 flexible hinge region; other site 1116231002506 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 1116231002507 non-specific DNA interactions [nucleotide binding]; other site 1116231002508 DNA binding site [nucleotide binding] 1116231002509 sequence specific DNA binding site [nucleotide binding]; other site 1116231002510 putative cAMP binding site [chemical binding]; other site 1116231002511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1116231002512 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 1116231002513 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 1116231002514 putative dimerization interface [polypeptide binding]; other site 1116231002515 Predicted membrane protein [Function unknown]; Region: COG2855 1116231002516 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1116231002517 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1116231002518 NAD(P) binding site [chemical binding]; other site 1116231002519 catalytic residues [active] 1116231002520 potential frameshift: common BLAST hit: gi|325978100|ref|YP_004287816.1| putative low temperature requirement A protein 1116231002521 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 1116231002522 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 1116231002523 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1116231002524 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1116231002525 GIY-YIG motif/motif A; other site 1116231002526 active site 1116231002527 catalytic site [active] 1116231002528 putative DNA binding site [nucleotide binding]; other site 1116231002529 metal binding site [ion binding]; metal-binding site 1116231002530 UvrB/uvrC motif; Region: UVR; pfam02151 1116231002531 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1116231002532 Family description; Region: ACT_7; pfam13840 1116231002533 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 1116231002534 dimer interface [polypeptide binding]; other site 1116231002535 FMN binding site [chemical binding]; other site 1116231002536 dipeptidase PepV; Reviewed; Region: PRK07318 1116231002537 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1116231002538 active site 1116231002539 metal binding site [ion binding]; metal-binding site 1116231002540 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1116231002541 ligand binding site [chemical binding]; other site 1116231002542 active site 1116231002543 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1116231002544 FtsX-like permease family; Region: FtsX; pfam02687 1116231002545 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1116231002546 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1116231002547 Walker A/P-loop; other site 1116231002548 ATP binding site [chemical binding]; other site 1116231002549 Q-loop/lid; other site 1116231002550 ABC transporter signature motif; other site 1116231002551 Walker B; other site 1116231002552 D-loop; other site 1116231002553 H-loop/switch region; other site 1116231002554 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1116231002555 putative uracil binding site [chemical binding]; other site 1116231002556 putative active site [active] 1116231002557 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1116231002558 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1116231002559 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1116231002560 G1 box; other site 1116231002561 GTP/Mg2+ binding site [chemical binding]; other site 1116231002562 Switch I region; other site 1116231002563 G2 box; other site 1116231002564 Switch II region; other site 1116231002565 G3 box; other site 1116231002566 G4 box; other site 1116231002567 G5 box; other site 1116231002568 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1116231002569 Predicted membrane protein [Function unknown]; Region: COG2035 1116231002570 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 1116231002571 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1116231002572 active site 1116231002573 dimer interface [polypeptide binding]; other site 1116231002574 phosphopentomutase; Provisional; Region: PRK05362 1116231002575 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1116231002576 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1116231002577 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1116231002578 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1116231002579 catalytic triad [active] 1116231002580 potential frameshift: common BLAST hit: gi|325978115|ref|YP_004287831.1| Chloride channel protein 1 1116231002581 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 1116231002582 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 1116231002583 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1116231002584 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1116231002585 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1116231002586 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl09873 1116231002588 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1116231002589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1116231002590 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 1116231002591 dimerization interface [polypeptide binding]; other site 1116231002592 DNA polymerase processivity factor; Region: DNA_PPF; pfam02916 1116231002593 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 1116231002594 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1116231002595 polysaccharide export protein, MPA1 family, Gram-positive type; Region: polys_exp_MPA1; TIGR01006 1116231002596 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1116231002597 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1116231002598 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1116231002599 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1116231002600 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1116231002601 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1116231002602 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1116231002603 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 1116231002604 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1116231002605 UDP-galactopyranose mutase; Region: GLF; pfam03275 1116231002606 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 1116231002607 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1116231002608 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1116231002609 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1116231002612 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 1116231002613 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1116231002614 putative ADP-binding pocket [chemical binding]; other site 1116231002615 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1116231002616 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1116231002617 Probable Catalytic site; other site 1116231002618 metal-binding site 1116231002619 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1116231002620 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1116231002621 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1116231002622 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1116231002623 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231002624 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231002625 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1116231002626 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231002628 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1116231002629 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1116231002630 NADP binding site [chemical binding]; other site 1116231002631 active site 1116231002632 putative substrate binding site [chemical binding]; other site 1116231002633 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1116231002634 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 1116231002635 FAD binding pocket [chemical binding]; other site 1116231002636 FAD binding motif [chemical binding]; other site 1116231002637 phosphate binding motif [ion binding]; other site 1116231002638 beta-alpha-beta structure motif; other site 1116231002639 NAD binding pocket [chemical binding]; other site 1116231002640 Iron coordination center [ion binding]; other site 1116231002641 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1116231002642 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 1116231002643 heterodimer interface [polypeptide binding]; other site 1116231002644 active site 1116231002645 FMN binding site [chemical binding]; other site 1116231002646 homodimer interface [polypeptide binding]; other site 1116231002647 substrate binding site [chemical binding]; other site 1116231002648 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 1116231002649 active site 1116231002650 dimer interface [polypeptide binding]; other site 1116231002651 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 1116231002652 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1116231002653 active site 1116231002654 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1116231002655 substrate binding site [chemical binding]; other site 1116231002656 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1116231002657 ligand binding site [chemical binding]; other site 1116231002658 active site 1116231002659 UGI interface [polypeptide binding]; other site 1116231002660 catalytic site [active] 1116231002661 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1116231002662 conserved cys residue [active] 1116231002663 dihydroorotase; Validated; Region: pyrC; PRK09357 1116231002664 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 1116231002665 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 1116231002666 active site 1116231002667 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1116231002668 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 1116231002669 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 1116231002670 Mg2+ binding site [ion binding]; other site 1116231002671 G-X-G motif; other site 1116231002672 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 1116231002673 anchoring element; other site 1116231002674 dimer interface [polypeptide binding]; other site 1116231002675 ATP binding site [chemical binding]; other site 1116231002676 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 1116231002677 active site 1116231002678 putative metal-binding site [ion binding]; other site 1116231002679 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1116231002680 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 1116231002681 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 1116231002682 CAP-like domain; other site 1116231002683 active site 1116231002684 primary dimer interface [polypeptide binding]; other site 1116231002685 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1116231002686 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1116231002687 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 1116231002688 homodimer interface [polypeptide binding]; other site 1116231002689 substrate-cofactor binding pocket; other site 1116231002690 catalytic residue [active] 1116231002691 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 1116231002692 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1116231002693 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 1116231002694 RNA binding site [nucleotide binding]; other site 1116231002695 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 1116231002696 RNA binding site [nucleotide binding]; other site 1116231002697 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 1116231002698 RNA binding site [nucleotide binding]; other site 1116231002699 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 1116231002700 RNA binding site [nucleotide binding]; other site 1116231002701 LrgB-like family; Region: LrgB; pfam04172 1116231002702 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1116231002703 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1116231002704 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1116231002705 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1116231002706 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231002707 Walker A/P-loop; other site 1116231002708 ATP binding site [chemical binding]; other site 1116231002709 Q-loop/lid; other site 1116231002710 ABC transporter signature motif; other site 1116231002711 Walker B; other site 1116231002712 D-loop; other site 1116231002713 H-loop/switch region; other site 1116231002714 Predicted transcriptional regulators [Transcription]; Region: COG1725 1116231002715 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1116231002716 DNA-binding site [nucleotide binding]; DNA binding site 1116231002717 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 1116231002718 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 1116231002719 active site 1116231002720 PHP Thumb interface [polypeptide binding]; other site 1116231002721 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 1116231002722 generic binding surface II; other site 1116231002723 generic binding surface I; other site 1116231002724 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 1116231002725 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1116231002726 active site 1116231002727 ADP/pyrophosphate binding site [chemical binding]; other site 1116231002728 dimerization interface [polypeptide binding]; other site 1116231002729 allosteric effector site; other site 1116231002730 fructose-1,6-bisphosphate binding site; other site 1116231002731 pyruvate kinase; Provisional; Region: PRK05826 1116231002732 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 1116231002733 domain interfaces; other site 1116231002734 active site 1116231002735 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1116231002736 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 1116231002737 Catalytic site [active] 1116231002738 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 1116231002739 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1116231002740 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 1116231002741 glutaminase active site [active] 1116231002742 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 1116231002743 dimer interface [polypeptide binding]; other site 1116231002744 active site 1116231002745 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 1116231002746 dimer interface [polypeptide binding]; other site 1116231002747 active site 1116231002750 potential frameshift: common BLAST hit: gi|330833512|ref|YP_004402337.1| transposase IS204/IS1001/IS1096/IS1165 family protein 1116231002751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231002752 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231002753 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1116231002754 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231002756 Uncharacterized conserved protein [Function unknown]; Region: COG1912 1116231002757 hypothetical protein; Provisional; Region: PRK13661 1116231002758 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1116231002759 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1116231002760 active site residue [active] 1116231002761 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 1116231002762 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1116231002763 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1116231002764 Walker A/P-loop; other site 1116231002765 ATP binding site [chemical binding]; other site 1116231002766 Q-loop/lid; other site 1116231002767 ABC transporter signature motif; other site 1116231002768 Walker B; other site 1116231002769 D-loop; other site 1116231002770 H-loop/switch region; other site 1116231002771 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 1116231002772 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1116231002773 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1116231002774 Walker A/P-loop; other site 1116231002775 ATP binding site [chemical binding]; other site 1116231002776 Q-loop/lid; other site 1116231002777 ABC transporter signature motif; other site 1116231002778 Walker B; other site 1116231002779 D-loop; other site 1116231002780 H-loop/switch region; other site 1116231002781 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1116231002782 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 1116231002783 DNA-binding site [nucleotide binding]; DNA binding site 1116231002784 RNA-binding motif; other site 1116231002785 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231002786 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231002787 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1116231002788 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1116231002789 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1116231002790 PhnA protein; Region: PhnA; pfam03831 1116231002791 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1116231002792 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 1116231002793 dimer interface [polypeptide binding]; other site 1116231002794 conserved gate region; other site 1116231002795 ABC-ATPase subunit interface; other site 1116231002796 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1116231002797 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231002798 Walker A/P-loop; other site 1116231002799 ATP binding site [chemical binding]; other site 1116231002800 Q-loop/lid; other site 1116231002801 ABC transporter signature motif; other site 1116231002802 Walker B; other site 1116231002803 D-loop; other site 1116231002804 H-loop/switch region; other site 1116231002805 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1116231002806 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 1116231002807 substrate binding pocket [chemical binding]; other site 1116231002808 membrane-bound complex binding site; other site 1116231002809 hinge residues; other site 1116231002810 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1116231002811 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1116231002812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 1116231002813 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1116231002814 Helix-turn-helix domain; Region: HTH_38; pfam13936 1116231002815 Integrase core domain; Region: rve; pfam00665 1116231002816 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1116231002817 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1116231002818 potential frameshift: common BLAST hit: gi|336064169|ref|YP_004559028.1| 6-phospho-beta-glucosidase 1116231002819 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1116231002820 similar to 6-phospho-beta-glucosidase 1116231002822 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 1116231002823 catalytic core [active] 1116231002824 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 1116231002825 catalytic core [active] 1116231002826 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1116231002827 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1116231002828 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1116231002829 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1116231002830 Ligand binding site; other site 1116231002831 metal-binding site 1116231002832 hypothetical protein; Reviewed; Region: PRK00024 1116231002833 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1116231002834 MPN+ (JAMM) motif; other site 1116231002835 Zinc-binding site [ion binding]; other site 1116231002836 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1116231002837 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1116231002838 CoA binding domain; Region: CoA_binding; pfam02629 1116231002839 Putative amino acid metabolism; Region: DUF1831; pfam08866 1116231002840 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1116231002841 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1116231002842 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1116231002843 catalytic residue [active] 1116231002844 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 1116231002845 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1116231002846 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1116231002847 active site 1116231002848 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 1116231002849 putative active site [active] 1116231002850 putative metal binding residues [ion binding]; other site 1116231002851 signature motif; other site 1116231002852 putative triphosphate binding site [ion binding]; other site 1116231002853 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1116231002854 synthetase active site [active] 1116231002855 NTP binding site [chemical binding]; other site 1116231002856 metal binding site [ion binding]; metal-binding site 1116231002857 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 1116231002858 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1116231002859 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1116231002860 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1116231002861 active site 1116231002862 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1116231002863 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1116231002864 malonic semialdehyde reductase; Provisional; Region: PRK10538 1116231002865 putative NAD(P) binding site [chemical binding]; other site 1116231002866 homodimer interface [polypeptide binding]; other site 1116231002867 homotetramer interface [polypeptide binding]; other site 1116231002868 active site 1116231002869 PAS domain; Region: PAS_10; pfam13596 1116231002871 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1116231002872 MarR family; Region: MarR_2; pfam12802 1116231002877 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1116231002878 Walker A/P-loop; other site 1116231002879 ATP binding site [chemical binding]; other site 1116231002880 ABC transporter; Region: ABC_tran; pfam00005 1116231002881 Q-loop/lid; other site 1116231002882 ABC transporter signature motif; other site 1116231002883 Walker B; other site 1116231002884 D-loop; other site 1116231002886 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1116231002887 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 1116231002888 active site 1116231002889 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231002890 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231002893 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1116231002894 active site 1116231002895 xanthine permease; Region: pbuX; TIGR03173 1116231002896 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1116231002897 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1116231002898 ApbE family; Region: ApbE; pfam02424 1116231002899 4-oxalocrotonate tautomerase; Provisional; Region: PRK02289 1116231002900 active site 1 [active] 1116231002901 dimer interface [polypeptide binding]; other site 1116231002902 hexamer interface [polypeptide binding]; other site 1116231002903 active site 2 [active] 1116231002904 thymidine kinase; Provisional; Region: PRK04296 1116231002905 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1116231002906 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1116231002907 RF-1 domain; Region: RF-1; pfam00472 1116231002908 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1116231002909 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 1116231002910 S-adenosylmethionine binding site [chemical binding]; other site 1116231002911 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1116231002912 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1116231002913 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 1116231002914 dimer interface [polypeptide binding]; other site 1116231002915 active site 1116231002916 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1116231002917 folate binding site [chemical binding]; other site 1116231002918 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 1116231002919 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1116231002920 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 1116231002921 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1116231002922 catalytic residue [active] 1116231002923 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1116231002924 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1116231002925 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1116231002926 Walker A/P-loop; other site 1116231002927 ATP binding site [chemical binding]; other site 1116231002928 Q-loop/lid; other site 1116231002929 ABC transporter signature motif; other site 1116231002930 Walker B; other site 1116231002931 D-loop; other site 1116231002932 H-loop/switch region; other site 1116231002933 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1116231002934 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1116231002935 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1116231002936 Walker A/P-loop; other site 1116231002937 ATP binding site [chemical binding]; other site 1116231002938 Q-loop/lid; other site 1116231002939 ABC transporter signature motif; other site 1116231002940 Walker B; other site 1116231002941 D-loop; other site 1116231002942 H-loop/switch region; other site 1116231002943 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 1116231002944 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 1116231002945 active site 1116231002946 Na/Ca binding site [ion binding]; other site 1116231002947 catalytic site [active] 1116231002948 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 1116231002950 potential frameshift: common BLAST hit: gi|325978221|ref|YP_004287937.1| type 11 methyltransferase 1116231002951 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 1116231002952 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1116231002953 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1116231002954 GMP synthase; Reviewed; Region: guaA; PRK00074 1116231002955 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1116231002956 AMP/PPi binding site [chemical binding]; other site 1116231002957 candidate oxyanion hole; other site 1116231002958 catalytic triad [active] 1116231002959 potential glutamine specificity residues [chemical binding]; other site 1116231002960 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 1116231002961 ATP Binding subdomain [chemical binding]; other site 1116231002962 Dimerization subdomain; other site 1116231002963 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 1116231002964 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1116231002965 DNA methylase; Region: N6_N4_Mtase; pfam01555 1116231002966 DNA methylase; Region: N6_N4_Mtase; pfam01555 1116231002967 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 1116231002968 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 1116231002969 ATP binding site [chemical binding]; other site 1116231002970 putative Mg++ binding site [ion binding]; other site 1116231002972 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231002973 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231002974 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1116231002975 Plasmid replication protein; Region: Rep_2; pfam01719 1116231002976 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 1116231002977 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 1116231002978 Int/Topo IB signature motif; other site 1116231002980 potential frameshift: common BLAST hit: gi|325978243|ref|YP_004287959.1| glucan-binding protein C 1116231002981 Glucan-binding protein C; Region: GbpC; pfam08363 1116231002982 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1116231002983 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 1116231002984 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1116231002986 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1116231002987 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1116231002988 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1116231002989 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1116231002990 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1116231002991 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1116231002992 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1116231002993 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 1116231002994 ATP binding site [chemical binding]; other site 1116231002995 putative Mg++ binding site [ion binding]; other site 1116231002996 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 1116231002997 Int/Topo IB signature motif; other site 1116231002998 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1116231002999 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1116231003000 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1116231003001 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1116231003002 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1116231003003 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1116231003004 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1116231003005 DNA-binding site [nucleotide binding]; DNA binding site 1116231003006 UTRA domain; Region: UTRA; pfam07702 1116231003007 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 1116231003008 putative active site [active] 1116231003010 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 1116231003011 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 1116231003012 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 1116231003013 signal recognition particle protein; Provisional; Region: PRK10867 1116231003014 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1116231003015 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 1116231003016 P loop; other site 1116231003017 GTP binding site [chemical binding]; other site 1116231003018 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1116231003019 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1116231003020 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 1116231003021 Cobalt transport protein; Region: CbiQ; cl00463 1116231003022 potential frameshift: common BLAST hit: gi|325978270|ref|YP_004287986.1| ABC transporter ATP-binding protein 1116231003023 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231003024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231003025 Walker B; other site 1116231003026 D-loop; other site 1116231003027 H-loop/switch region; other site 1116231003028 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 1116231003029 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 1116231003030 active site 1116231003031 DNA binding site [nucleotide binding] 1116231003032 Int/Topo IB signature motif; other site 1116231003033 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1116231003034 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 1116231003035 non-specific DNA binding site [nucleotide binding]; other site 1116231003036 salt bridge; other site 1116231003037 sequence-specific DNA binding site [nucleotide binding]; other site 1116231003038 Predicted transcriptional regulator [Transcription]; Region: COG2932 1116231003039 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 1116231003040 Catalytic site [active] 1116231003041 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1116231003042 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 1116231003043 ATP binding site [chemical binding]; other site 1116231003044 G-X-G motif; other site 1116231003045 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1116231003046 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 1116231003047 active site 1116231003048 phosphorylation site [posttranslational modification] 1116231003049 intermolecular recognition site; other site 1116231003050 dimerization interface [polypeptide binding]; other site 1116231003051 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 1116231003052 DNA binding site [nucleotide binding] 1116231003053 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1116231003054 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1116231003055 Walker A/P-loop; other site 1116231003056 ATP binding site [chemical binding]; other site 1116231003057 Q-loop/lid; other site 1116231003058 ABC transporter signature motif; other site 1116231003059 Walker B; other site 1116231003060 D-loop; other site 1116231003061 H-loop/switch region; other site 1116231003062 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1116231003063 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1116231003064 Glucose inhibited division protein A; Region: GIDA; pfam01134 1116231003067 DNA topoisomerase I; Validated; Region: PRK05582 1116231003068 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 1116231003069 active site 1116231003070 interdomain interaction site; other site 1116231003071 putative metal-binding site [ion binding]; other site 1116231003072 nucleotide binding site [chemical binding]; other site 1116231003073 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 1116231003074 domain I; other site 1116231003075 DNA binding groove [nucleotide binding] 1116231003076 phosphate binding site [ion binding]; other site 1116231003077 domain II; other site 1116231003078 domain III; other site 1116231003079 nucleotide binding site [chemical binding]; other site 1116231003080 catalytic site [active] 1116231003081 domain IV; other site 1116231003082 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1116231003083 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1116231003084 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1116231003085 DNA protecting protein DprA; Region: dprA; TIGR00732 1116231003086 maltose O-acetyltransferase; Provisional; Region: PRK10092 1116231003087 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 1116231003088 active site 1116231003089 substrate binding site [chemical binding]; other site 1116231003090 trimer interface [polypeptide binding]; other site 1116231003091 CoA binding site [chemical binding]; other site 1116231003092 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1116231003093 RNA/DNA hybrid binding site [nucleotide binding]; other site 1116231003094 active site 1116231003095 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1116231003096 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1116231003097 GTP/Mg2+ binding site [chemical binding]; other site 1116231003098 G4 box; other site 1116231003099 G5 box; other site 1116231003100 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1116231003101 G1 box; other site 1116231003102 G1 box; other site 1116231003103 GTP/Mg2+ binding site [chemical binding]; other site 1116231003104 Switch I region; other site 1116231003105 G2 box; other site 1116231003106 G2 box; other site 1116231003107 G3 box; other site 1116231003108 G3 box; other site 1116231003109 Switch II region; other site 1116231003110 Switch II region; other site 1116231003111 G5 box; other site 1116231003112 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 1116231003113 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1116231003114 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1116231003115 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1116231003116 ABC transporter; Region: ABC_tran_2; pfam12848 1116231003117 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1116231003118 Predicted membrane protein [Function unknown]; Region: COG4720 1116231003119 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 1116231003120 dimer interface [polypeptide binding]; other site 1116231003121 pyridoxal binding site [chemical binding]; other site 1116231003122 ATP binding site [chemical binding]; other site 1116231003123 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 1116231003124 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1116231003125 DNA-binding site [nucleotide binding]; DNA binding site 1116231003126 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 1116231003127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231003128 homodimer interface [polypeptide binding]; other site 1116231003129 catalytic residue [active] 1116231003130 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1116231003131 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1116231003132 dimer interface [polypeptide binding]; other site 1116231003133 active site 1116231003134 catalytic residue [active] 1116231003135 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1116231003136 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1116231003137 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 1116231003138 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1116231003139 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1116231003140 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 1116231003141 putative active site [active] 1116231003142 catalytic site [active] 1116231003143 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 1116231003144 putative active site [active] 1116231003145 catalytic site [active] 1116231003146 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1116231003147 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 1116231003148 Potassium binding sites [ion binding]; other site 1116231003149 Cesium cation binding sites [ion binding]; other site 1116231003150 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 1116231003151 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 1116231003152 Flavoprotein; Region: Flavoprotein; pfam02441 1116231003153 Predicted membrane protein [Function unknown]; Region: COG4684 1116231003154 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1116231003155 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 1116231003156 active site 1116231003157 substrate binding site [chemical binding]; other site 1116231003158 metal binding site [ion binding]; metal-binding site 1116231003159 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1116231003160 Predicted secreted protein [Function unknown]; Region: COG4086 1116231003161 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 1116231003162 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 1116231003163 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1116231003164 putative metal binding site [ion binding]; other site 1116231003165 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 1116231003166 active site 1116231003167 catalytic site [active] 1116231003168 DNA gyrase subunit A; Validated; Region: PRK05560 1116231003169 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 1116231003170 CAP-like domain; other site 1116231003171 active site 1116231003172 primary dimer interface [polypeptide binding]; other site 1116231003173 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1116231003174 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1116231003175 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1116231003176 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1116231003177 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1116231003178 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1116231003179 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1116231003180 Integrase core domain; Region: rve; pfam00665 1116231003181 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1116231003182 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1116231003183 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1116231003184 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1116231003185 NAD binding site [chemical binding]; other site 1116231003186 dimer interface [polypeptide binding]; other site 1116231003187 substrate binding site [chemical binding]; other site 1116231003188 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1116231003189 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1116231003190 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1116231003191 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1116231003192 potential frameshift: common BLAST hit: gi|288906057|ref|YP_003431279.1| IS861, transposase OrfB 1116231003193 Integrase core domain; Region: rve; pfam00665 1116231003194 Integrase core domain; Region: rve_2; pfam13333 1116231003195 putative transposase OrfB; Reviewed; Region: PHA02517 1116231003199 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1116231003200 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 1116231003201 TM-ABC transporter signature motif; other site 1116231003202 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1116231003203 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 1116231003204 TM-ABC transporter signature motif; other site 1116231003205 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1116231003206 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1116231003207 Walker A/P-loop; other site 1116231003208 ATP binding site [chemical binding]; other site 1116231003209 Q-loop/lid; other site 1116231003210 ABC transporter signature motif; other site 1116231003211 Walker B; other site 1116231003212 D-loop; other site 1116231003213 H-loop/switch region; other site 1116231003214 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1116231003215 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1116231003216 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 1116231003217 ligand binding site [chemical binding]; other site 1116231003218 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1116231003219 intersubunit interface [polypeptide binding]; other site 1116231003220 active site 1116231003221 catalytic residue [active] 1116231003222 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1116231003223 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 1116231003224 S-adenosylmethionine binding site [chemical binding]; other site 1116231003225 pantothenate kinase; Provisional; Region: PRK05439 1116231003226 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 1116231003227 ATP-binding site [chemical binding]; other site 1116231003228 CoA-binding site [chemical binding]; other site 1116231003229 Mg2+-binding site [ion binding]; other site 1116231003230 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1116231003231 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1116231003232 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 1116231003233 dimer interface [polypeptide binding]; other site 1116231003234 phosphorylation site [posttranslational modification] 1116231003235 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 1116231003236 ATP binding site [chemical binding]; other site 1116231003237 Mg2+ binding site [ion binding]; other site 1116231003238 G-X-G motif; other site 1116231003239 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1116231003240 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 1116231003241 active site 1116231003242 phosphorylation site [posttranslational modification] 1116231003243 intermolecular recognition site; other site 1116231003244 dimerization interface [polypeptide binding]; other site 1116231003245 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 1116231003246 DNA binding site [nucleotide binding] 1116231003247 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 1116231003248 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1116231003249 Zn binding site [ion binding]; other site 1116231003251 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231003252 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231003253 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1116231003254 PhoU domain; Region: PhoU; pfam01895 1116231003255 PhoU domain; Region: PhoU; pfam01895 1116231003256 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 1116231003257 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1116231003258 Walker A/P-loop; other site 1116231003259 ATP binding site [chemical binding]; other site 1116231003260 Q-loop/lid; other site 1116231003261 ABC transporter signature motif; other site 1116231003262 Walker B; other site 1116231003263 D-loop; other site 1116231003264 H-loop/switch region; other site 1116231003265 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 1116231003266 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1116231003267 Walker A/P-loop; other site 1116231003268 ATP binding site [chemical binding]; other site 1116231003269 Q-loop/lid; other site 1116231003270 ABC transporter signature motif; other site 1116231003271 Walker B; other site 1116231003272 D-loop; other site 1116231003273 H-loop/switch region; other site 1116231003274 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1116231003275 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 1116231003276 dimer interface [polypeptide binding]; other site 1116231003277 conserved gate region; other site 1116231003278 putative PBP binding loops; other site 1116231003279 ABC-ATPase subunit interface; other site 1116231003280 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1116231003281 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 1116231003282 dimer interface [polypeptide binding]; other site 1116231003283 conserved gate region; other site 1116231003284 putative PBP binding loops; other site 1116231003285 ABC-ATPase subunit interface; other site 1116231003286 phosphate binding protein; Region: ptsS_2; TIGR02136 1116231003287 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1116231003288 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 1116231003289 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 1116231003290 S-adenosylmethionine binding site [chemical binding]; other site 1116231003291 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 1116231003292 Phosphotyrosyl phosphatase activator (PTPA) is also known as protein phosphatase 2A (PP2A) phosphatase activator. PTPA is an essential, well conserved protein that stimulates the tyrosyl phosphatase activity of PP2A. It also reactivates the serine...; Region: PTPA; cl03888 1116231003293 glutathione reductase; Validated; Region: PRK06116 1116231003294 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1116231003295 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1116231003296 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1116231003297 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 1116231003298 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1116231003299 catalytic residues [active] 1116231003300 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1116231003301 similar to Predicted divalent heavy-metal cations transporter 1116231003302 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1116231003303 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1116231003304 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 1116231003305 active site 1116231003306 hypothetical protein; Provisional; Region: PRK04387 1116231003307 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 1116231003308 ArsC family; Region: ArsC; pfam03960 1116231003309 putative catalytic residues [active] 1116231003310 thiol/disulfide switch; other site 1116231003311 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1116231003312 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1116231003313 active site 1116231003314 Riboflavin kinase; Region: Flavokinase; pfam01687 1116231003315 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 1116231003316 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1116231003317 RNA binding site [nucleotide binding]; other site 1116231003318 active site 1116231003319 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 1116231003320 Uncharacterized conserved protein [Function unknown]; Region: COG2461 1116231003321 Family of unknown function (DUF438); Region: DUF438; pfam04282 1116231003322 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 1116231003323 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1116231003324 Coenzyme A binding pocket [chemical binding]; other site 1116231003325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 1116231003326 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 1116231003327 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 1116231003329 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1116231003330 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1116231003331 Walker A/P-loop; other site 1116231003332 ATP binding site [chemical binding]; other site 1116231003333 Q-loop/lid; other site 1116231003334 ABC transporter signature motif; other site 1116231003335 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1116231003336 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231003337 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231003338 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1116231003339 dimer interface [polypeptide binding]; other site 1116231003340 catalytic triad [active] 1116231003341 peroxidatic and resolving cysteines [active] 1116231003342 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1116231003343 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 1116231003344 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1116231003345 homodimer interface [polypeptide binding]; other site 1116231003346 substrate-cofactor binding pocket; other site 1116231003347 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231003348 catalytic residue [active] 1116231003349 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1116231003350 active site 1116231003351 pyrophosphate binding site [ion binding]; other site 1116231003352 thiamine phosphate binding site [chemical binding]; other site 1116231003354 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1116231003355 Part of AAA domain; Region: AAA_19; pfam13245 1116231003356 Family description; Region: UvrD_C_2; pfam13538 1116231003357 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1116231003358 conserved cys residue [active] 1116231003359 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1116231003360 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1116231003361 active site 1116231003362 multimer interface [polypeptide binding]; other site 1116231003364 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 1116231003365 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1116231003366 DNA-binding site [nucleotide binding]; DNA binding site 1116231003367 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 1116231003368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231003369 homodimer interface [polypeptide binding]; other site 1116231003370 catalytic residue [active] 1116231003371 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1116231003372 amino acid carrier protein; Region: agcS; TIGR00835 1116231003373 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1116231003375 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1116231003376 active site 1116231003377 catalytic triad [active] 1116231003378 oxyanion hole [active] 1116231003380 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 1116231003381 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1116231003382 active site 1116231003383 motif I; other site 1116231003384 motif II; other site 1116231003385 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 1116231003386 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 1116231003387 active site 1116231003388 substrate binding site [chemical binding]; other site 1116231003389 maltose O-acetyltransferase; Provisional; Region: PRK10092 1116231003390 trimer interface [polypeptide binding]; other site 1116231003391 CoA binding site [chemical binding]; other site 1116231003393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1116231003395 ABC1 family; Region: ABC1; cl17513 1116231003396 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1116231003397 ABC1 family; Region: ABC1; cl17513 1116231003398 Uncharacterized conserved protein [Function unknown]; Region: COG3937 1116231003399 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1116231003400 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1116231003401 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1116231003402 putative transposase OrfB; Reviewed; Region: PHA02517 1116231003403 HTH-like domain; Region: HTH_21; pfam13276 1116231003404 Integrase core domain; Region: rve; pfam00665 1116231003405 Integrase core domain; Region: rve_2; pfam13333 1116231003406 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1116231003407 Transposase; Region: HTH_Tnp_1; cl17663 1116231003408 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1116231003409 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 1116231003410 active site turn [active] 1116231003411 phosphorylation site [posttranslational modification] 1116231003412 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1116231003413 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 1116231003414 HPr interaction site; other site 1116231003415 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1116231003416 active site 1116231003417 phosphorylation site [posttranslational modification] 1116231003419 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1116231003420 CAT RNA binding domain; Region: CAT_RBD; smart01061 1116231003421 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1116231003422 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 1116231003423 Cl- selectivity filter; other site 1116231003424 Cl- binding residues [ion binding]; other site 1116231003425 pore gating glutamate residue; other site 1116231003426 dimer interface [polypeptide binding]; other site 1116231003427 H+/Cl- coupling transport residue; other site 1116231003428 TrkA-C domain; Region: TrkA_C; pfam02080 1116231003429 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1116231003430 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1116231003431 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1116231003432 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 1116231003433 dimer interface [polypeptide binding]; other site 1116231003434 conserved gate region; other site 1116231003435 putative PBP binding loops; other site 1116231003436 ABC-ATPase subunit interface; other site 1116231003437 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 1116231003438 dimer interface [polypeptide binding]; other site 1116231003439 conserved gate region; other site 1116231003440 putative PBP binding loops; other site 1116231003441 ABC-ATPase subunit interface; other site 1116231003442 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1116231003443 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1116231003444 Walker A/P-loop; other site 1116231003445 ATP binding site [chemical binding]; other site 1116231003446 Q-loop/lid; other site 1116231003447 ABC transporter signature motif; other site 1116231003448 Walker B; other site 1116231003449 D-loop; other site 1116231003450 H-loop/switch region; other site 1116231003451 TOBE domain; Region: TOBE_2; pfam08402 1116231003452 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1116231003453 FAD binding domain; Region: FAD_binding_4; pfam01565 1116231003454 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1116231003455 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 1116231003456 catalytic center binding site [active] 1116231003457 ATP binding site [chemical binding]; other site 1116231003458 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 1116231003459 homooctamer interface [polypeptide binding]; other site 1116231003460 active site 1116231003461 dihydropteroate synthase; Region: DHPS; TIGR01496 1116231003462 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 1116231003463 substrate binding pocket [chemical binding]; other site 1116231003464 dimer interface [polypeptide binding]; other site 1116231003465 inhibitor binding site; inhibition site 1116231003466 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 1116231003467 homodecamer interface [polypeptide binding]; other site 1116231003468 GTP cyclohydrolase I; Provisional; Region: PLN03044 1116231003469 active site 1116231003470 putative catalytic site residues [active] 1116231003471 zinc binding site [ion binding]; other site 1116231003472 GTP-CH-I/GFRP interaction surface; other site 1116231003473 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1116231003474 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1116231003475 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1116231003476 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1116231003477 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 1116231003478 substrate binding pocket [chemical binding]; other site 1116231003479 membrane-bound complex binding site; other site 1116231003480 hinge residues; other site 1116231003481 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1116231003482 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1116231003483 Walker A/P-loop; other site 1116231003484 ATP binding site [chemical binding]; other site 1116231003485 Q-loop/lid; other site 1116231003486 ABC transporter signature motif; other site 1116231003487 Walker B; other site 1116231003488 D-loop; other site 1116231003489 H-loop/switch region; other site 1116231003490 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 1116231003491 dimer interface [polypeptide binding]; other site 1116231003492 conserved gate region; other site 1116231003493 ABC-ATPase subunit interface; other site 1116231003494 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 1116231003495 dimer interface [polypeptide binding]; other site 1116231003496 conserved gate region; other site 1116231003497 putative PBP binding loops; other site 1116231003498 ABC-ATPase subunit interface; other site 1116231003499 potential frameshift: common BLAST hit: gi|325978429|ref|YP_004288145.1| para-aminobenzoate synthetase component I 1116231003500 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 1116231003501 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1116231003502 substrate-cofactor binding pocket; other site 1116231003503 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1116231003504 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1116231003505 rarD protein; Region: rarD; TIGR00688 1116231003506 EamA-like transporter family; Region: EamA; pfam00892 1116231003507 homoserine kinase; Provisional; Region: PRK01212 1116231003508 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1116231003509 homoserine dehydrogenase; Provisional; Region: PRK06349 1116231003510 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1116231003511 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1116231003512 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1116231003513 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1116231003514 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 1116231003515 putative active site [active] 1116231003516 putative metal binding site [ion binding]; other site 1116231003518 potential frameshift: common BLAST hit: gi|125625249|ref|YP_001033732.1| transposase for insertion sequence element IS905N 1116231003519 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1116231003520 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1116231003522 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 1116231003523 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1116231003524 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 1116231003525 Int/Topo IB signature motif; other site 1116231003526 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 1116231003527 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1116231003528 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 1116231003529 non-specific DNA binding site [nucleotide binding]; other site 1116231003530 salt bridge; other site 1116231003531 sequence-specific DNA binding site [nucleotide binding]; other site 1116231003532 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1116231003533 active site 1116231003534 catalytic residues [active] 1116231003535 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 1116231003536 beta-galactosidase; Region: BGL; TIGR03356 1116231003537 phosphotransferase system, lactose specific, IIC component; Region: lac_pts_IIC; TIGR00394 1116231003538 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1116231003539 PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two...; Region: PTS_IIB_lactose; cd05565 1116231003540 active site 1116231003541 P-loop; other site 1116231003542 phosphorylation site [posttranslational modification] 1116231003543 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 1116231003544 methionine cluster; other site 1116231003545 active site 1116231003546 phosphorylation site [posttranslational modification] 1116231003547 metal binding site [ion binding]; metal-binding site 1116231003548 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 1116231003549 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 1116231003550 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 1116231003551 putative substrate binding site [chemical binding]; other site 1116231003552 putative ATP binding site [chemical binding]; other site 1116231003553 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 1116231003554 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 1116231003555 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1116231003556 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1116231003557 nucleotide binding site [chemical binding]; other site 1116231003558 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1116231003559 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1116231003560 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1116231003561 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1116231003563 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 1116231003564 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 1116231003565 Int/Topo IB signature motif; other site 1116231003566 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 1116231003567 Plasmid replication protein; Region: Rep_2; pfam01719 1116231003568 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1116231003569 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 1116231003570 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 1116231003571 core dimer interface [polypeptide binding]; other site 1116231003572 L10 interface [polypeptide binding]; other site 1116231003573 L11 interface [polypeptide binding]; other site 1116231003574 putative EF-Tu interaction site [polypeptide binding]; other site 1116231003575 putative EF-G interaction site [polypeptide binding]; other site 1116231003576 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 1116231003577 23S rRNA interface [nucleotide binding]; other site 1116231003578 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1116231003580 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 1116231003581 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1116231003582 Walker A motif; other site 1116231003583 ATP binding site [chemical binding]; other site 1116231003584 Walker B motif; other site 1116231003585 arginine finger; other site 1116231003586 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 1116231003587 Walker A motif; other site 1116231003588 ATP binding site [chemical binding]; other site 1116231003589 Walker B motif; other site 1116231003590 arginine finger; other site 1116231003591 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1116231003592 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1116231003593 helix-hairpin-helix signature motif; other site 1116231003594 substrate binding pocket [chemical binding]; other site 1116231003595 active site 1116231003596 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1116231003597 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 1116231003598 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1116231003599 S-methylmethionine transporter; Provisional; Region: PRK11387 1116231003600 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1116231003601 G1 box; other site 1116231003602 GTP/Mg2+ binding site [chemical binding]; other site 1116231003603 Switch I region; other site 1116231003604 G2 box; other site 1116231003605 G3 box; other site 1116231003606 Switch II region; other site 1116231003607 G4 box; other site 1116231003608 G5 box; other site 1116231003609 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1116231003610 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1116231003611 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 1116231003612 Walker A motif; other site 1116231003613 ATP binding site [chemical binding]; other site 1116231003614 Walker B motif; other site 1116231003615 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1116231003616 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1116231003617 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 1116231003618 folate binding site [chemical binding]; other site 1116231003619 NADP+ binding site [chemical binding]; other site 1116231003620 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1116231003621 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 1116231003622 dimerization interface [polypeptide binding]; other site 1116231003623 active site 1116231003624 "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 1116231003625 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 1116231003626 dimer interface [polypeptide binding]; other site 1116231003627 active site 1116231003628 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1116231003629 homodimer interface [polypeptide binding]; other site 1116231003630 catalytic residues [active] 1116231003631 NAD binding site [chemical binding]; other site 1116231003632 substrate binding pocket [chemical binding]; other site 1116231003633 flexible flap; other site 1116231003634 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1116231003635 DNA binding residues [nucleotide binding] 1116231003636 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1116231003637 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1116231003638 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1116231003639 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1116231003640 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 1116231003641 homotetramer interface [polypeptide binding]; other site 1116231003642 FMN binding site [chemical binding]; other site 1116231003643 homodimer contacts [polypeptide binding]; other site 1116231003644 putative active site [active] 1116231003645 putative substrate binding site [chemical binding]; other site 1116231003646 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 1116231003647 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1116231003648 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1116231003649 diphosphomevalonate decarboxylase; Region: PLN02407 1116231003650 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 1116231003651 mevalonate kinase; Region: mevalon_kin; TIGR00549 1116231003652 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1116231003653 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1116231003654 putative dimer interface [polypeptide binding]; other site 1116231003655 N-terminal domain interface [polypeptide binding]; other site 1116231003656 putative substrate binding pocket (H-site) [chemical binding]; other site 1116231003657 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1116231003658 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 1116231003659 substrate binding pocket [chemical binding]; other site 1116231003660 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1116231003661 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1116231003662 Walker A/P-loop; other site 1116231003663 ATP binding site [chemical binding]; other site 1116231003664 Q-loop/lid; other site 1116231003665 ABC transporter signature motif; other site 1116231003666 Walker B; other site 1116231003667 D-loop; other site 1116231003668 H-loop/switch region; other site 1116231003669 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1116231003670 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 1116231003671 dimer interface [polypeptide binding]; other site 1116231003672 conserved gate region; other site 1116231003673 putative PBP binding loops; other site 1116231003674 ABC-ATPase subunit interface; other site 1116231003675 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1116231003676 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 1116231003677 dimer interface [polypeptide binding]; other site 1116231003678 conserved gate region; other site 1116231003679 putative PBP binding loops; other site 1116231003680 ABC-ATPase subunit interface; other site 1116231003681 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1116231003682 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 1116231003683 substrate binding pocket [chemical binding]; other site 1116231003684 membrane-bound complex binding site; other site 1116231003685 hinge residues; other site 1116231003686 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 1116231003687 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1116231003688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1116231003689 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 1116231003690 dimerization interface [polypeptide binding]; other site 1116231003691 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 1116231003692 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1116231003693 active site 1116231003694 catalytic tetrad [active] 1116231003698 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1116231003699 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1116231003700 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1116231003701 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1116231003702 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1116231003703 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1116231003704 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 1116231003705 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1116231003706 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 1116231003707 ATP binding site [chemical binding]; other site 1116231003708 putative Mg++ binding site [ion binding]; other site 1116231003709 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 1116231003710 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1116231003711 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1116231003712 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1116231003713 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 1116231003714 dimer interface [polypeptide binding]; other site 1116231003715 phosphorylation site [posttranslational modification] 1116231003716 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 1116231003717 ATP binding site [chemical binding]; other site 1116231003718 Mg2+ binding site [ion binding]; other site 1116231003719 G-X-G motif; other site 1116231003720 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1116231003721 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 1116231003722 active site 1116231003723 phosphorylation site [posttranslational modification] 1116231003724 intermolecular recognition site; other site 1116231003725 dimerization interface [polypeptide binding]; other site 1116231003726 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1116231003727 DNA binding site [nucleotide binding] 1116231003728 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1116231003729 synthetase active site [active] 1116231003730 NTP binding site [chemical binding]; other site 1116231003731 metal binding site [ion binding]; metal-binding site 1116231003732 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 1116231003733 dimer interface [polypeptide binding]; other site 1116231003734 conserved gate region; other site 1116231003735 putative PBP binding loops; other site 1116231003736 ABC-ATPase subunit interface; other site 1116231003737 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1116231003738 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1116231003739 Walker A/P-loop; other site 1116231003740 ATP binding site [chemical binding]; other site 1116231003741 Q-loop/lid; other site 1116231003742 ABC transporter signature motif; other site 1116231003743 Walker B; other site 1116231003744 D-loop; other site 1116231003745 H-loop/switch region; other site 1116231003746 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1116231003747 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 1116231003748 ABC-ATPase subunit interface; other site 1116231003749 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1116231003750 MarR family; Region: MarR_2; pfam12802 1116231003752 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1116231003753 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1116231003754 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1116231003755 Walker A/P-loop; other site 1116231003756 ATP binding site [chemical binding]; other site 1116231003757 Q-loop/lid; other site 1116231003758 ABC transporter signature motif; other site 1116231003759 Walker B; other site 1116231003760 D-loop; other site 1116231003761 H-loop/switch region; other site 1116231003762 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1116231003763 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1116231003764 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231003765 Walker A/P-loop; other site 1116231003766 ATP binding site [chemical binding]; other site 1116231003767 Q-loop/lid; other site 1116231003768 ABC transporter signature motif; other site 1116231003769 Walker B; other site 1116231003770 D-loop; other site 1116231003771 H-loop/switch region; other site 1116231003772 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1116231003773 MarR family; Region: MarR_2; pfam12802 1116231003774 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 1116231003775 active site 1116231003776 catalytic residues [active] 1116231003777 metal binding site [ion binding]; metal-binding site 1116231003778 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1116231003779 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 1116231003780 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1116231003781 Coenzyme A binding pocket [chemical binding]; other site 1116231003782 glutamate dehydrogenase; Provisional; Region: PRK09414 1116231003783 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1116231003784 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1116231003785 NAD(P) binding site [chemical binding]; other site 1116231003786 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1116231003787 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 1116231003788 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1116231003789 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1116231003790 active site 1116231003791 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1116231003792 Ligand Binding Site [chemical binding]; other site 1116231003793 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1116231003794 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1116231003795 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1116231003796 Walker A/P-loop; other site 1116231003797 ATP binding site [chemical binding]; other site 1116231003798 Q-loop/lid; other site 1116231003799 ABC transporter signature motif; other site 1116231003800 Walker B; other site 1116231003801 D-loop; other site 1116231003802 H-loop/switch region; other site 1116231003803 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1116231003804 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1116231003805 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231003806 Walker A/P-loop; other site 1116231003807 ATP binding site [chemical binding]; other site 1116231003808 Q-loop/lid; other site 1116231003809 ABC transporter signature motif; other site 1116231003810 Walker B; other site 1116231003811 D-loop; other site 1116231003812 H-loop/switch region; other site 1116231003813 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1116231003814 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1116231003815 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1116231003816 ABC transporter; Region: ABC_tran_2; pfam12848 1116231003817 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1116231003818 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1116231003819 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1116231003820 active site 1116231003821 NTP binding site [chemical binding]; other site 1116231003822 metal binding triad [ion binding]; metal-binding site 1116231003823 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1116231003824 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1116231003825 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1116231003826 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1116231003827 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1116231003828 EDD domain protein, DegV family; Region: DegV; TIGR00762 1116231003829 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1116231003830 Protein of unknown function (DUF1149); Region: DUF1149; pfam06619 1116231003831 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1116231003833 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 1116231003834 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1116231003835 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 1116231003836 FAD binding site [chemical binding]; other site 1116231003837 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1116231003838 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1116231003839 THF binding site; other site 1116231003840 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1116231003841 substrate binding site [chemical binding]; other site 1116231003842 THF binding site; other site 1116231003843 zinc-binding site [ion binding]; other site 1116231003844 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1116231003845 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 1116231003846 active site 1116231003847 phosphorylation site [posttranslational modification] 1116231003848 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 1116231003849 active site 1116231003850 P-loop; other site 1116231003851 phosphorylation site [posttranslational modification] 1116231003852 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1116231003853 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1116231003854 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 1116231003855 putative substrate binding site [chemical binding]; other site 1116231003856 putative ATP binding site [chemical binding]; other site 1116231003857 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1116231003858 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1116231003859 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1116231003860 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1116231003861 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1116231003862 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 1116231003863 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1116231003864 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1116231003865 RimM N-terminal domain; Region: RimM; pfam01782 1116231003866 PRC-barrel domain; Region: PRC; pfam05239 1116231003867 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1116231003868 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1116231003869 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1116231003870 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1116231003871 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 1116231003872 motif II; other site 1116231003873 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1116231003874 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1116231003875 KH domain; Region: KH_4; pfam13083 1116231003876 G-X-X-G motif; other site 1116231003877 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 1116231003880 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 1116231003881 similar to Hypothetical protein 1116231003882 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1116231003883 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1116231003884 FtsX-like permease family; Region: FtsX; pfam02687 1116231003885 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1116231003886 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1116231003887 Walker A/P-loop; other site 1116231003888 ATP binding site [chemical binding]; other site 1116231003889 Q-loop/lid; other site 1116231003890 ABC transporter signature motif; other site 1116231003891 Walker B; other site 1116231003892 D-loop; other site 1116231003893 H-loop/switch region; other site 1116231003894 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1116231003895 HlyD family secretion protein; Region: HlyD_3; pfam13437 1116231003896 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1116231003897 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1116231003898 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1116231003899 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1116231003900 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1116231003901 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1116231003902 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 1116231003903 IMP binding site; other site 1116231003904 dimer interface [polypeptide binding]; other site 1116231003905 interdomain contacts; other site 1116231003906 partial ornithine binding site; other site 1116231003907 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1116231003908 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1116231003909 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1116231003910 catalytic site [active] 1116231003911 subunit interface [polypeptide binding]; other site 1116231003912 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1116231003913 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1116231003914 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1116231003915 uracil transporter; Provisional; Region: PRK10720 1116231003916 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1116231003917 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1116231003918 active site 1116231003919 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1116231003920 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 1116231003921 RNA binding surface [nucleotide binding]; other site 1116231003922 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1116231003923 active site 1116231003924 lipoprotein signal peptidase; Provisional; Region: PRK14797 1116231003925 lipoprotein signal peptidase; Provisional; Region: PRK14787 1116231003926 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1116231003927 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1116231003928 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 1116231003929 dimerization interface [polypeptide binding]; other site 1116231003930 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1116231003931 Protein of unknown function (DUF464); Region: DUF464; pfam04327 1116231003932 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1116231003933 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1116231003934 Coenzyme A binding pocket [chemical binding]; other site 1116231003935 Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane]; Region: PgsA; COG2843 1116231003936 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1116231003937 putative active site [active] 1116231003938 putative metal binding site [ion binding]; other site 1116231003939 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1116231003940 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1116231003941 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 1116231003942 Ligand Binding Site [chemical binding]; other site 1116231003943 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1116231003944 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1116231003945 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1116231003946 catalytic residue [active] 1116231003947 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1116231003948 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1116231003949 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1116231003950 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1116231003951 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1116231003952 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1116231003953 NAD binding site [chemical binding]; other site 1116231003954 dimer interface [polypeptide binding]; other site 1116231003955 substrate binding site [chemical binding]; other site 1116231003956 hypothetical protein; Provisional; Region: PRK13676 1116231003957 prephenate dehydrogenase; Validated; Region: PRK06545 1116231003958 prephenate dehydrogenase; Validated; Region: PRK08507 1116231003959 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1116231003960 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1116231003961 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1116231003962 Tetramer interface [polypeptide binding]; other site 1116231003963 active site 1116231003964 FMN-binding site [chemical binding]; other site 1116231003965 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1116231003966 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1116231003967 active site 1116231003968 dimer interface [polypeptide binding]; other site 1116231003969 metal binding site [ion binding]; metal-binding site 1116231003970 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1116231003971 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1116231003972 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1116231003973 shikimate binding site; other site 1116231003974 NAD(P) binding site [chemical binding]; other site 1116231003975 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1116231003976 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1116231003977 active site 1116231003978 catalytic residue [active] 1116231003979 dimer interface [polypeptide binding]; other site 1116231003980 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1116231003981 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1116231003982 putative RNA binding site [nucleotide binding]; other site 1116231003983 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 1116231003984 S-adenosylmethionine binding site [chemical binding]; other site 1116231003985 similar to putative integrase 1116231003986 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1116231003987 Sulfatase; Region: Sulfatase; pfam00884 1116231003988 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1116231003989 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1116231003990 putative active site [active] 1116231003991 putative NTP binding site [chemical binding]; other site 1116231003992 putative nucleic acid binding site [nucleotide binding]; other site 1116231003993 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1116231003994 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1116231003995 23S rRNA binding site [nucleotide binding]; other site 1116231003996 L21 binding site [polypeptide binding]; other site 1116231003997 L13 binding site [polypeptide binding]; other site 1116231003998 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1116231003999 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1116231004000 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1116231004001 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1116231004002 cytidylate kinase; Provisional; Region: cmk; PRK00023 1116231004003 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 1116231004004 CMP-binding site; other site 1116231004005 The sites determining sugar specificity; other site 1116231004006 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1116231004007 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1116231004008 peptidase T; Region: peptidase-T; TIGR01882 1116231004009 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1116231004010 metal binding site [ion binding]; metal-binding site 1116231004011 dimer interface [polypeptide binding]; other site 1116231004012 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231004013 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231004014 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231004015 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1116231004016 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1116231004017 active site 1116231004018 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231004019 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231004020 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231004021 Surface antigen [General function prediction only]; Region: COG3942 1116231004022 CHAP domain; Region: CHAP; pfam05257 1116231004023 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1116231004024 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1116231004025 Ligand binding site; other site 1116231004026 Putative Catalytic site; other site 1116231004027 DXD motif; other site 1116231004028 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1116231004029 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 1116231004030 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 1116231004031 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1116231004032 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 1116231004033 Sulfatase; Region: Sulfatase; pfam00884 1116231004034 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 1116231004035 active site 1116231004036 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1116231004037 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 1116231004038 active site 1116231004039 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 1116231004040 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1116231004041 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1116231004042 Uncharacterized conserved protein (DUF2304); Region: DUF2304; pfam10066 1116231004043 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1116231004044 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1116231004045 Ligand binding site; other site 1116231004046 Putative Catalytic site; other site 1116231004047 DXD motif; other site 1116231004048 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1116231004049 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 1116231004050 active site 1116231004051 Rhamnan synthesis protein F; Region: RgpF; pfam05045 1116231004052 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1116231004053 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1116231004054 active site 1116231004055 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1116231004056 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1116231004057 Walker A/P-loop; other site 1116231004058 ATP binding site [chemical binding]; other site 1116231004059 Q-loop/lid; other site 1116231004060 ABC transporter signature motif; other site 1116231004061 Walker B; other site 1116231004062 D-loop; other site 1116231004063 H-loop/switch region; other site 1116231004064 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1116231004065 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1116231004066 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1116231004067 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1116231004068 Probable Catalytic site; other site 1116231004069 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 1116231004070 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1116231004071 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1116231004072 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1116231004073 NADP binding site [chemical binding]; other site 1116231004074 active site 1116231004075 putative substrate binding site [chemical binding]; other site 1116231004077 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1116231004078 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1116231004079 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1116231004080 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1116231004081 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1116231004082 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1116231004083 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 1116231004084 DNA binding residues [nucleotide binding] 1116231004085 DNA primase, catalytic core; Region: dnaG; TIGR01391 1116231004086 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1116231004087 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1116231004088 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 1116231004089 active site 1116231004090 metal binding site [ion binding]; metal-binding site 1116231004091 interdomain interaction site; other site 1116231004092 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1116231004093 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1116231004094 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1116231004095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1116231004096 Transposase; Region: HTH_Tnp_1; cl17663 1116231004097 putative transposase OrfB; Reviewed; Region: PHA02517 1116231004098 HTH-like domain; Region: HTH_21; pfam13276 1116231004099 Integrase core domain; Region: rve; pfam00665 1116231004100 Integrase core domain; Region: rve_2; pfam13333 1116231004101 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 1116231004102 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1116231004103 substrate binding pocket [chemical binding]; other site 1116231004104 membrane-bound complex binding site; other site 1116231004105 hinge residues; other site 1116231004106 transaminase; Validated; Region: PRK07324 1116231004107 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 1116231004108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231004109 homodimer interface [polypeptide binding]; other site 1116231004110 catalytic residue [active] 1116231004111 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 1116231004112 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1116231004113 substrate binding pocket [chemical binding]; other site 1116231004114 membrane-bound complex binding site; other site 1116231004115 hinge residues; other site 1116231004116 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 1116231004117 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1116231004118 substrate binding pocket [chemical binding]; other site 1116231004119 membrane-bound complex binding site; other site 1116231004120 hinge residues; other site 1116231004121 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 1116231004122 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1116231004123 4-alpha-glucanotransferase; Provisional; Region: PRK14508 1116231004124 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1116231004125 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1116231004126 DNA binding site [nucleotide binding] 1116231004127 domain linker motif; other site 1116231004128 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 1116231004129 putative dimerization interface [polypeptide binding]; other site 1116231004130 putative ligand binding site [chemical binding]; other site 1116231004131 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1116231004132 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1116231004133 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 1116231004134 dimer interface [polypeptide binding]; other site 1116231004135 conserved gate region; other site 1116231004136 putative PBP binding loops; other site 1116231004137 ABC-ATPase subunit interface; other site 1116231004138 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1116231004139 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 1116231004140 dimer interface [polypeptide binding]; other site 1116231004141 conserved gate region; other site 1116231004142 putative PBP binding loops; other site 1116231004143 ABC-ATPase subunit interface; other site 1116231004144 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 1116231004145 putative active site [active] 1116231004146 nucleotide binding site [chemical binding]; other site 1116231004147 nudix motif; other site 1116231004148 putative metal binding site [ion binding]; other site 1116231004149 excinuclease ABC subunit B; Provisional; Region: PRK05298 1116231004150 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 1116231004151 ATP binding site [chemical binding]; other site 1116231004152 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 1116231004153 nucleotide binding region [chemical binding]; other site 1116231004154 ATP-binding site [chemical binding]; other site 1116231004155 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1116231004156 UvrB/uvrC motif; Region: UVR; pfam02151 1116231004157 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1116231004158 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 1116231004159 substrate binding pocket [chemical binding]; other site 1116231004160 membrane-bound complex binding site; other site 1116231004161 hinge residues; other site 1116231004162 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1116231004163 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 1116231004164 substrate binding pocket [chemical binding]; other site 1116231004165 membrane-bound complex binding site; other site 1116231004166 hinge residues; other site 1116231004167 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 1116231004168 dimer interface [polypeptide binding]; other site 1116231004169 conserved gate region; other site 1116231004170 putative PBP binding loops; other site 1116231004171 ABC-ATPase subunit interface; other site 1116231004172 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1116231004173 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1116231004174 Walker A/P-loop; other site 1116231004175 ATP binding site [chemical binding]; other site 1116231004176 Q-loop/lid; other site 1116231004177 ABC transporter signature motif; other site 1116231004178 Walker B; other site 1116231004179 D-loop; other site 1116231004180 H-loop/switch region; other site 1116231004181 potential frameshift: common BLAST hit: gi|325978629|ref|YP_004288345.1| putative ABC transporter ATP-binding protein 1116231004182 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1116231004183 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231004184 Walker A/P-loop; other site 1116231004185 ATP binding site [chemical binding]; other site 1116231004186 Q-loop/lid; other site 1116231004187 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231004188 H-loop/switch region; other site 1116231004189 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1116231004190 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1116231004191 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1116231004192 GTP1/OBG; Region: GTP1_OBG; pfam01018 1116231004193 Obg GTPase; Region: Obg; cd01898 1116231004194 G1 box; other site 1116231004195 GTP/Mg2+ binding site [chemical binding]; other site 1116231004196 Switch I region; other site 1116231004197 G2 box; other site 1116231004198 G3 box; other site 1116231004199 Switch II region; other site 1116231004200 G4 box; other site 1116231004201 G5 box; other site 1116231004202 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1116231004203 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1116231004204 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 1116231004205 RNA binding surface [nucleotide binding]; other site 1116231004206 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1116231004207 active site 1116231004208 uracil binding [chemical binding]; other site 1116231004209 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1116231004210 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1116231004211 peptide binding site [polypeptide binding]; other site 1116231004213 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231004214 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1116231004215 Q-loop/lid; other site 1116231004216 ABC transporter signature motif; other site 1116231004217 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1116231004218 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231004219 Walker B; other site 1116231004220 D-loop; other site 1116231004221 H-loop/switch region; other site 1116231004222 putative transposase OrfB; Reviewed; Region: PHA02517 1116231004223 HTH-like domain; Region: HTH_21; pfam13276 1116231004224 Integrase core domain; Region: rve; pfam00665 1116231004225 Integrase core domain; Region: rve_2; pfam13333 1116231004226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1116231004227 Transposase; Region: HTH_Tnp_1; cl17663 1116231004229 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1116231004230 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1116231004231 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1116231004232 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 1116231004233 Ligand Binding Site [chemical binding]; other site 1116231004234 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 1116231004236 Integrase core domain; Region: rve; pfam00665 1116231004237 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1116231004238 Integrase core domain; Region: rve_3; pfam13683 1116231004239 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 1116231004240 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1116231004241 Walker A/P-loop; other site 1116231004242 ATP binding site [chemical binding]; other site 1116231004243 Q-loop/lid; other site 1116231004244 ABC transporter signature motif; other site 1116231004245 Walker B; other site 1116231004246 D-loop; other site 1116231004247 H-loop/switch region; other site 1116231004248 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1116231004250 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1116231004251 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1116231004252 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1116231004253 HTH-like domain; Region: HTH_21; pfam13276 1116231004254 Helix-turn-helix domain; Region: HTH_28; pfam13518 1116231004255 Winged helix-turn helix; Region: HTH_29; pfam13551 1116231004256 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1116231004257 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1116231004258 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1116231004259 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1116231004260 Helix-turn-helix domain; Region: HTH_38; pfam13936 1116231004263 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 1116231004264 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1116231004265 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 1116231004266 catalytic residues [active] 1116231004267 catalytic nucleophile [active] 1116231004268 Recombinase; Region: Recombinase; pfam07508 1116231004269 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1116231004270 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 1116231004271 non-specific DNA binding site [nucleotide binding]; other site 1116231004272 salt bridge; other site 1116231004273 sequence-specific DNA binding site [nucleotide binding]; other site 1116231004274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 1116231004275 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1116231004276 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1116231004277 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1116231004278 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231004279 Walker A/P-loop; other site 1116231004280 ATP binding site [chemical binding]; other site 1116231004281 Q-loop/lid; other site 1116231004282 ABC transporter signature motif; other site 1116231004283 Walker B; other site 1116231004284 D-loop; other site 1116231004285 H-loop/switch region; other site 1116231004286 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_C39F; cd02425 1116231004287 putative active site [active] 1116231004288 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1116231004289 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231004290 Walker A/P-loop; other site 1116231004291 ATP binding site [chemical binding]; other site 1116231004292 Q-loop/lid; other site 1116231004293 ABC transporter signature motif; other site 1116231004294 Walker B; other site 1116231004295 D-loop; other site 1116231004296 H-loop/switch region; other site 1116231004297 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 1116231004298 LanM-like proteins. LanM is a bifunctional enzyme, involved in the synthesis of class II lantibiotics. It is responsible for both the dehydration and the cyclization of the precursor-peptide during lantibiotic synthesis. The C-terminal domain shows...; Region: LanM-like; cd04792 1116231004299 active site 1116231004300 zinc binding site [ion binding]; other site 1116231004301 Type-A lantibiotic; Region: L_biotic_typeA; pfam04604 1116231004302 Type-A lantibiotic; Region: L_biotic_typeA; pfam04604 1116231004303 Type-A lantibiotic; Region: L_biotic_typeA; pfam04604 1116231004304 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1116231004305 MULE transposase domain; Region: MULE; pfam10551 1116231004306 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1116231004307 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 1116231004308 active site 1116231004309 phosphorylation site [posttranslational modification] 1116231004310 intermolecular recognition site; other site 1116231004311 dimerization interface [polypeptide binding]; other site 1116231004312 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 1116231004313 DNA binding site [nucleotide binding] 1116231004314 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1116231004315 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 1116231004316 dimer interface [polypeptide binding]; other site 1116231004317 phosphorylation site [posttranslational modification] 1116231004318 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 1116231004319 ATP binding site [chemical binding]; other site 1116231004320 Mg2+ binding site [ion binding]; other site 1116231004321 G-X-G motif; other site 1116231004322 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1116231004323 Lantibiotic streptin immunity protein; Region: Streptin-Immun; pfam11083 1116231004324 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1116231004325 active site 1116231004326 ATP binding site [chemical binding]; other site 1116231004327 substrate binding site [chemical binding]; other site 1116231004328 activation loop (A-loop); other site 1116231004329 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1116231004330 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 1116231004331 non-specific DNA binding site [nucleotide binding]; other site 1116231004332 salt bridge; other site 1116231004333 sequence-specific DNA binding site [nucleotide binding]; other site 1116231004334 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 1116231004335 Predicted transcriptional regulator [Transcription]; Region: COG2932 1116231004336 Catalytic site [active] 1116231004337 DNA polymerase IV; Reviewed; Region: PRK03103 1116231004338 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1116231004339 active site 1116231004340 DNA binding site [nucleotide binding] 1116231004341 YolD-like protein; Region: YolD; pfam08863 1116231004342 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1116231004343 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; cl02788 1116231004344 catalytic residues [active] 1116231004345 catalytic nucleophile [active] 1116231004346 Drosophila roughex protein; Region: Roughex; pfam06020 1116231004347 CHC2 zinc finger; Region: zf-CHC2; cl17510 1116231004348 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1116231004349 Toprim-like; Region: Toprim_2; pfam13155 1116231004350 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 1116231004351 catalytic residues [active] 1116231004352 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1116231004353 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 1116231004354 active site 1116231004355 phosphorylation site [posttranslational modification] 1116231004356 intermolecular recognition site; other site 1116231004357 dimerization interface [polypeptide binding]; other site 1116231004358 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 1116231004359 DNA binding residues [nucleotide binding] 1116231004360 dimerization interface [polypeptide binding]; other site 1116231004361 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1116231004362 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1116231004363 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 1116231004364 Walker A/P-loop; other site 1116231004365 ATP binding site [chemical binding]; other site 1116231004366 Q-loop/lid; other site 1116231004367 ABC transporter signature motif; other site 1116231004368 Walker B; other site 1116231004369 D-loop; other site 1116231004370 H-loop/switch region; other site 1116231004371 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1116231004372 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1116231004373 putative active site [active] 1116231004374 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1116231004375 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231004376 Walker A/P-loop; other site 1116231004377 ATP binding site [chemical binding]; other site 1116231004378 Q-loop/lid; other site 1116231004379 ABC transporter signature motif; other site 1116231004380 Walker B; other site 1116231004381 D-loop; other site 1116231004382 H-loop/switch region; other site 1116231004383 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 1116231004384 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 1116231004385 active site 1116231004386 zinc binding site [ion binding]; other site 1116231004387 Type-A lantibiotic; Region: L_biotic_typeA; pfam04604 1116231004388 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1116231004389 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1116231004390 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1116231004391 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1116231004392 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1116231004393 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1116231004394 putative cross-wall-targeting lipoprotein signal; Region: strep_RK_lipo; TIGR03726 1116231004395 Glucan-binding protein C; Region: GbpC; pfam08363 1116231004396 adhesin isopeptide-forming domain, sspB-C2 type; Region: isopep_sspB_C2; TIGR04228 1116231004397 adhesin isopeptide-forming domain, sspB-C2 type; Region: isopep_sspB_C2; TIGR04228 1116231004398 adhesin isopeptide-forming domain, sspB-C2 type; Region: isopep_sspB_C2; TIGR04228 1116231004399 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1116231004400 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1116231004401 Peptidase family M23; Region: Peptidase_M23; pfam01551 1116231004402 CHAP domain; Region: CHAP; pfam05257 1116231004403 Domain of unknown function DUF87; Region: DUF87; pfam01935 1116231004404 AAA-like domain; Region: AAA_10; pfam12846 1116231004405 PrgI family protein; Region: PrgI; pfam12666 1116231004406 AAA-like domain; Region: AAA_10; pfam12846 1116231004407 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 1116231004408 Walker A motif; other site 1116231004409 ATP binding site [chemical binding]; other site 1116231004410 Walker B motif; other site 1116231004411 CAAX protease self-immunity; Region: Abi; pfam02517 1116231004412 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1116231004413 ArsC family; Region: ArsC; pfam03960 1116231004414 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 1116231004415 cofactor binding site; other site 1116231004416 DNA binding site [nucleotide binding] 1116231004417 substrate interaction site [chemical binding]; other site 1116231004418 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 1116231004419 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 1116231004421 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1116231004422 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 1116231004423 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 1116231004424 S-adenosylmethionine binding site [chemical binding]; other site 1116231004425 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 1116231004426 prephenate dehydratase; Provisional; Region: PRK11898 1116231004427 Prephenate dehydratase; Region: PDT; pfam00800 1116231004428 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 1116231004429 putative L-Phe binding site [chemical binding]; other site 1116231004430 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1116231004431 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 1116231004432 ADP binding site [chemical binding]; other site 1116231004433 magnesium binding site [ion binding]; other site 1116231004434 putative shikimate binding site; other site 1116231004435 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1116231004436 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 1116231004437 hinge; other site 1116231004438 active site 1116231004439 GTP-binding protein LepA; Provisional; Region: PRK05433 1116231004440 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1116231004441 G1 box; other site 1116231004442 putative GEF interaction site [polypeptide binding]; other site 1116231004443 GTP/Mg2+ binding site [chemical binding]; other site 1116231004444 Switch I region; other site 1116231004445 G2 box; other site 1116231004446 G3 box; other site 1116231004447 Switch II region; other site 1116231004448 G4 box; other site 1116231004449 G5 box; other site 1116231004450 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 1116231004451 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 1116231004452 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1116231004453 Stu0660-like CRISPR/Cas system-associated protein Csn2; Region: Stu0660_Csn2; cd12217 1116231004454 tetramer interface [polypeptide binding]; other site 1116231004455 putative DNA binding site [nucleotide binding]; other site 1116231004456 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 1116231004457 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 1116231004458 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 1116231004459 CRISPR-associated protein Cas9/Csn1, subtype II/NMEMI; Region: cas_Csn1; TIGR01865 1116231004460 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 1116231004461 active site 1116231004462 multimer interface [polypeptide binding]; other site 1116231004463 Predicted membrane protein [Function unknown]; Region: COG4478 1116231004464 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1116231004465 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 1116231004466 active site 1116231004467 motif I; other site 1116231004468 motif II; other site 1116231004469 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 1116231004471 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 1116231004472 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 1116231004473 active site 1116231004474 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 1116231004475 active site 2 [active] 1116231004476 active site 1 [active] 1116231004477 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1116231004478 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 1116231004479 FeS/SAM binding site; other site 1116231004480 HemN C-terminal domain; Region: HemN_C; pfam06969 1116231004481 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1116231004482 Transposase; Region: HTH_Tnp_1; cl17663 1116231004483 putative transposase OrfB; Reviewed; Region: PHA02517 1116231004484 HTH-like domain; Region: HTH_21; pfam13276 1116231004485 Integrase core domain; Region: rve; pfam00665 1116231004486 Integrase core domain; Region: rve_2; pfam13333 1116231004487 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1116231004488 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 1116231004489 active site 1116231004490 substrate binding site [chemical binding]; other site 1116231004491 metal binding site [ion binding]; metal-binding site 1116231004492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1116231004493 YbbR-like protein; Region: YbbR; pfam07949 1116231004494 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1116231004495 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1116231004496 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1116231004497 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1116231004498 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1116231004499 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1116231004500 catalytic triad [active] 1116231004501 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231004502 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231004503 enolase; Provisional; Region: eno; PRK00077 1116231004504 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 1116231004505 dimer interface [polypeptide binding]; other site 1116231004506 metal binding site [ion binding]; metal-binding site 1116231004507 substrate binding pocket [chemical binding]; other site 1116231004508 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 1116231004509 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1116231004510 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1116231004511 nudix motif; other site 1116231004512 potential frameshift: common BLAST hit: gi|325978685|ref|YP_004288401.1| pullulanase PulA-like protein 1116231004513 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cl04227 1116231004514 carbohydrate binding site [chemical binding]; other site 1116231004515 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 1116231004516 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1116231004517 active site 1116231004518 catalytic site [active] 1116231004519 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 1116231004520 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1116231004521 carbohydrate binding site [chemical binding]; other site 1116231004522 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1116231004523 carbohydrate binding site [chemical binding]; other site 1116231004524 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 1116231004525 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 1116231004526 Ca binding site [ion binding]; other site 1116231004527 active site 1116231004528 catalytic site [active] 1116231004529 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1116231004530 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 1116231004531 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1116231004532 carbohydrate binding site [chemical binding]; other site 1116231004533 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1116231004534 metal binding site [ion binding]; metal-binding site 1116231004535 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1116231004536 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 1116231004537 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1116231004538 substrate binding site [chemical binding]; other site 1116231004539 glutamase interaction surface [polypeptide binding]; other site 1116231004540 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 1116231004541 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1116231004542 catalytic residues [active] 1116231004543 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1116231004544 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1116231004545 putative active site [active] 1116231004546 oxyanion strand; other site 1116231004547 catalytic triad [active] 1116231004548 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1116231004549 putative active site pocket [active] 1116231004550 4-fold oligomerization interface [polypeptide binding]; other site 1116231004551 metal binding residues [ion binding]; metal-binding site 1116231004552 3-fold/trimer interface [polypeptide binding]; other site 1116231004553 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1116231004554 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 1116231004555 motif II; other site 1116231004556 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 1116231004557 histidinol dehydrogenase; Region: hisD; TIGR00069 1116231004558 NAD binding site [chemical binding]; other site 1116231004559 dimerization interface [polypeptide binding]; other site 1116231004560 product binding site; other site 1116231004561 substrate binding site [chemical binding]; other site 1116231004562 zinc binding site [ion binding]; other site 1116231004563 catalytic residues [active] 1116231004564 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1116231004565 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1116231004566 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 1116231004567 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 1116231004568 dimer interface [polypeptide binding]; other site 1116231004569 motif 1; other site 1116231004570 active site 1116231004571 motif 2; other site 1116231004572 motif 3; other site 1116231004573 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1116231004574 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 1116231004575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231004576 homodimer interface [polypeptide binding]; other site 1116231004577 catalytic residue [active] 1116231004579 septation ring formation regulator EzrA; Provisional; Region: PRK04778 1116231004580 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1116231004581 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 1116231004582 Mg2+ binding site [ion binding]; other site 1116231004583 G-X-G motif; other site 1116231004584 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 1116231004585 anchoring element; other site 1116231004586 dimer interface [polypeptide binding]; other site 1116231004587 ATP binding site [chemical binding]; other site 1116231004588 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 1116231004589 active site 1116231004590 putative metal-binding site [ion binding]; other site 1116231004591 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1116231004592 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1116231004593 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 1116231004594 motif II; other site 1116231004595 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1116231004596 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1116231004597 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 1116231004598 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1116231004599 Cl- selectivity filter; other site 1116231004600 Cl- binding residues [ion binding]; other site 1116231004601 pore gating glutamate residue; other site 1116231004602 dimer interface [polypeptide binding]; other site 1116231004603 hypothetical protein; Provisional; Region: PRK07248 1116231004604 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1116231004605 potential frameshift: common BLAST hit: gi|325978706|ref|YP_004288422.1| FeS assembly protein SufB 1116231004606 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1116231004607 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1116231004608 flavodoxin; Validated; Region: PRK07308 1116231004609 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1116231004610 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 1116231004611 active site 1116231004612 purine riboside binding site [chemical binding]; other site 1116231004614 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1116231004615 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 1116231004616 putative dimer interface [polypeptide binding]; other site 1116231004617 putative anticodon binding site; other site 1116231004618 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 1116231004619 homodimer interface [polypeptide binding]; other site 1116231004620 motif 1; other site 1116231004621 motif 2; other site 1116231004622 active site 1116231004623 motif 3; other site 1116231004624 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 1116231004625 aspartate aminotransferase; Provisional; Region: PRK05764 1116231004626 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 1116231004627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231004628 homodimer interface [polypeptide binding]; other site 1116231004629 catalytic residue [active] 1116231004630 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 1116231004631 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 1116231004632 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1116231004633 active site 1116231004634 catalytic site [active] 1116231004635 substrate binding site [chemical binding]; other site 1116231004636 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 1116231004637 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1116231004642 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1116231004643 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1116231004644 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1116231004645 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1116231004646 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1116231004647 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231004648 Walker A/P-loop; other site 1116231004649 ATP binding site [chemical binding]; other site 1116231004650 Q-loop/lid; other site 1116231004651 ABC transporter signature motif; other site 1116231004652 Walker B; other site 1116231004653 D-loop; other site 1116231004654 H-loop/switch region; other site 1116231004655 similar to Peptide chain release factor 2; programmed frameshift-containing 1116231004658 putative phosphoesterase; Region: acc_ester; TIGR03729 1116231004659 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1116231004660 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1116231004661 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1116231004662 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1116231004663 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1116231004664 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1116231004665 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1116231004666 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 1116231004667 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1116231004668 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1116231004669 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1116231004670 Zn2+ binding site [ion binding]; other site 1116231004671 Mg2+ binding site [ion binding]; other site 1116231004672 sugar phosphate phosphatase; Provisional; Region: PRK10513 1116231004673 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 1116231004674 active site 1116231004675 motif I; other site 1116231004676 motif II; other site 1116231004677 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 1116231004678 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1116231004679 FemAB family; Region: FemAB; pfam02388 1116231004680 FemAB family; Region: FemAB; pfam02388 1116231004681 U3 small nucleolar ribonucleoprotein component [Translation, ribosomal structure and biogenesis]; Region: Mpp10; COG5384 1116231004682 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1116231004683 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1116231004684 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1116231004685 triosephosphate isomerase; Provisional; Region: PRK14567 1116231004686 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 1116231004687 substrate binding site [chemical binding]; other site 1116231004688 dimer interface [polypeptide binding]; other site 1116231004689 catalytic triad [active] 1116231004690 elongation factor Tu; Reviewed; Region: PRK00049 1116231004691 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1116231004692 G1 box; other site 1116231004693 GEF interaction site [polypeptide binding]; other site 1116231004694 GTP/Mg2+ binding site [chemical binding]; other site 1116231004695 Switch I region; other site 1116231004696 G2 box; other site 1116231004697 G3 box; other site 1116231004698 Switch II region; other site 1116231004699 G4 box; other site 1116231004700 G5 box; other site 1116231004701 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 1116231004702 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 1116231004703 Antibiotic Binding Site [chemical binding]; other site 1116231004704 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1116231004705 Integrase core domain; Region: rve; pfam00665 1116231004706 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 1116231004707 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 1116231004708 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 1116231004709 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 1116231004710 DNA binding residues [nucleotide binding] 1116231004711 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1116231004712 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1116231004713 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1116231004714 oligoendopeptidase F; Region: pepF; TIGR00181 1116231004715 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1116231004716 Zn binding site [ion binding]; other site 1116231004717 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 1116231004718 catalytic residues [active] 1116231004719 dimer interface [polypeptide binding]; other site 1116231004720 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1116231004721 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 1116231004722 active site 1116231004723 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1116231004724 amidase catalytic site [active] 1116231004725 Zn binding residues [ion binding]; other site 1116231004726 substrate binding site [chemical binding]; other site 1116231004727 similar to Transcriptional regulator 1116231004728 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 1116231004729 catalytic core [active] 1116231004730 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1116231004731 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 1116231004732 motif II; other site 1116231004733 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1116231004734 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 1116231004735 dimer interface [polypeptide binding]; other site 1116231004736 putative anticodon binding site; other site 1116231004737 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 1116231004738 motif 1; other site 1116231004739 active site 1116231004740 motif 2; other site 1116231004741 motif 3; other site 1116231004743 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1116231004744 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 1116231004745 active site 1116231004746 motif I; other site 1116231004747 motif II; other site 1116231004748 BioY family; Region: BioY; pfam02632 1116231004749 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 1116231004750 Integrase core domain; Region: rve; pfam00665 1116231004751 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1116231004752 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1116231004753 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1116231004754 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1116231004755 Peptidase family U32; Region: Peptidase_U32; pfam01136 1116231004756 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1116231004757 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 1116231004758 Peptidase family U32; Region: Peptidase_U32; pfam01136 1116231004759 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 1116231004760 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 1116231004761 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 1116231004762 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1116231004763 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1116231004764 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 1116231004765 Hpr binding site; other site 1116231004766 active site 1116231004767 homohexamer subunit interaction site [polypeptide binding]; other site 1116231004768 PspC domain; Region: PspC; pfam04024 1116231004769 hypothetical protein; Provisional; Region: PRK04351 1116231004770 SprT homologues; Region: SprT; cl01182 1116231004771 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1116231004772 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1116231004773 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1116231004774 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 1116231004775 RNA binding site [nucleotide binding]; other site 1116231004776 Predicted permeases [General function prediction only]; Region: COG0701 1116231004777 Predicted membrane protein [Function unknown]; Region: COG3689 1116231004779 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1116231004780 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1116231004781 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 1116231004782 P loop; other site 1116231004783 GTP binding site [chemical binding]; other site 1116231004784 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 1116231004785 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1116231004786 active site 1116231004787 motif I; other site 1116231004788 motif II; other site 1116231004789 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 1116231004790 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 1116231004791 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1116231004792 active site 1116231004793 motif I; other site 1116231004794 motif II; other site 1116231004795 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 1116231004797 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1116231004798 nudix motif; other site 1116231004799 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1116231004800 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1116231004801 Walker A/P-loop; other site 1116231004802 ATP binding site [chemical binding]; other site 1116231004803 Q-loop/lid; other site 1116231004804 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1116231004805 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1116231004806 ABC transporter signature motif; other site 1116231004807 Walker B; other site 1116231004808 D-loop; other site 1116231004809 H-loop/switch region; other site 1116231004810 ribonuclease III; Reviewed; Region: rnc; PRK00102 1116231004811 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 1116231004812 dimerization interface [polypeptide binding]; other site 1116231004813 active site 1116231004814 metal binding site [ion binding]; metal-binding site 1116231004815 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 1116231004816 dsRNA binding site [nucleotide binding]; other site 1116231004817 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1116231004818 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1116231004819 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1116231004820 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 1116231004821 putative active site [active] 1116231004822 heme pocket [chemical binding]; other site 1116231004823 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 1116231004824 dimer interface [polypeptide binding]; other site 1116231004825 phosphorylation site [posttranslational modification] 1116231004826 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 1116231004827 ATP binding site [chemical binding]; other site 1116231004828 Mg2+ binding site [ion binding]; other site 1116231004829 G-X-G motif; other site 1116231004830 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1116231004831 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 1116231004832 active site 1116231004833 phosphorylation site [posttranslational modification] 1116231004834 intermolecular recognition site; other site 1116231004835 dimerization interface [polypeptide binding]; other site 1116231004836 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 1116231004837 DNA binding site [nucleotide binding] 1116231004838 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1116231004839 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1116231004840 Walker A/P-loop; other site 1116231004841 ATP binding site [chemical binding]; other site 1116231004842 Q-loop/lid; other site 1116231004843 ABC transporter signature motif; other site 1116231004844 Walker B; other site 1116231004845 D-loop; other site 1116231004846 H-loop/switch region; other site 1116231004847 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 1116231004848 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1116231004849 substrate binding pocket [chemical binding]; other site 1116231004850 membrane-bound complex binding site; other site 1116231004851 hinge residues; other site 1116231004852 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 1116231004853 dimer interface [polypeptide binding]; other site 1116231004854 conserved gate region; other site 1116231004855 putative PBP binding loops; other site 1116231004856 ABC-ATPase subunit interface; other site 1116231004857 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1116231004858 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 1116231004859 dimer interface [polypeptide binding]; other site 1116231004860 conserved gate region; other site 1116231004861 putative PBP binding loops; other site 1116231004862 ABC-ATPase subunit interface; other site 1116231004863 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1116231004864 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1116231004865 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1116231004866 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 1116231004867 dimer interface [polypeptide binding]; other site 1116231004868 phosphorylation site [posttranslational modification] 1116231004869 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 1116231004870 ATP binding site [chemical binding]; other site 1116231004871 Mg2+ binding site [ion binding]; other site 1116231004872 G-X-G motif; other site 1116231004873 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231004874 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231004875 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1116231004876 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 1116231004877 active site 1116231004878 phosphorylation site [posttranslational modification] 1116231004879 intermolecular recognition site; other site 1116231004880 dimerization interface [polypeptide binding]; other site 1116231004881 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 1116231004882 DNA binding site [nucleotide binding] 1116231004883 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 1116231004885 potential frameshift: common BLAST hit: gi|325978805|ref|YP_004288521.1| putative pectate lyase related protein 1116231004886 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1116231004887 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 1116231004888 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1116231004889 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 1116231004890 active site 1116231004891 dimer interface [polypeptide binding]; other site 1116231004892 motif 1; other site 1116231004893 motif 2; other site 1116231004894 motif 3; other site 1116231004895 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 1116231004896 anticodon binding site; other site 1116231004897 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 1116231004898 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1116231004899 putative ADP-binding pocket [chemical binding]; other site 1116231004900 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1116231004901 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1116231004902 catabolite control protein A; Region: ccpA; TIGR01481 1116231004903 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1116231004904 DNA binding site [nucleotide binding] 1116231004905 domain linker motif; other site 1116231004906 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 1116231004907 dimerization interface [polypeptide binding]; other site 1116231004908 effector binding site; other site 1116231004909 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1116231004910 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1116231004911 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 1116231004912 active site 1116231004913 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1116231004915 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1116231004916 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 1116231004917 dimer interface [polypeptide binding]; other site 1116231004918 FMN binding site [chemical binding]; other site 1116231004919 potential frameshift: common BLAST hit: gi|325978847|ref|YP_004288563.1| 6-phospho-beta-glucosidase 1116231004920 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1116231004921 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1116231004922 potential frameshift: common BLAST hit: gi|325978848|ref|YP_004288564.1| PTS system beta-glucosides-specific transporter subunit IIA 1116231004923 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1116231004924 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1116231004925 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 1116231004926 active site turn [active] 1116231004927 phosphorylation site [posttranslational modification] 1116231004928 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1116231004929 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1116231004930 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 1116231004931 putative active site [active] 1116231004932 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1116231004934 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231004935 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231004936 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 1116231004937 SmpB-tmRNA interface; other site 1116231004938 ribonuclease R; Region: RNase_R; TIGR02063 1116231004939 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1116231004940 RNB domain; Region: RNB; pfam00773 1116231004941 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 1116231004942 RNA binding site [nucleotide binding]; other site 1116231004943 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 1116231004944 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1116231004945 similar to Multidrug resistance efflux pump PmrA 1116231004946 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 1116231004947 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1116231004948 CoA-binding site [chemical binding]; other site 1116231004949 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1116231004950 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1116231004951 DNA binding site [nucleotide binding] 1116231004952 catalytic residue [active] 1116231004953 H2TH interface [polypeptide binding]; other site 1116231004954 putative catalytic residues [active] 1116231004955 turnover-facilitating residue; other site 1116231004956 intercalation triad [nucleotide binding]; other site 1116231004957 8OG recognition residue [nucleotide binding]; other site 1116231004958 putative reading head residues; other site 1116231004959 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1116231004960 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1116231004961 GTPase Era; Reviewed; Region: era; PRK00089 1116231004962 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1116231004963 G1 box; other site 1116231004964 GTP/Mg2+ binding site [chemical binding]; other site 1116231004965 Switch I region; other site 1116231004966 G2 box; other site 1116231004967 Switch II region; other site 1116231004968 G3 box; other site 1116231004969 G4 box; other site 1116231004970 G5 box; other site 1116231004971 KH domain; Region: KH_2; pfam07650 1116231004972 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1116231004973 metal-binding heat shock protein; Provisional; Region: PRK00016 1116231004974 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1116231004975 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 1116231004976 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1116231004977 PhoH-like protein; Region: PhoH; pfam02562 1116231004978 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 1116231004979 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1116231004980 putative substrate translocation pore; other site 1116231004981 hypothetical protein; Provisional; Region: PRK13672 1116231004982 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1116231004983 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1116231004984 S1 domain; Region: S1_2; pfam13509 1116231004985 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1116231004986 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1116231004987 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 1116231004988 hinge region; other site 1116231004989 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 1116231004990 putative nucleotide binding site [chemical binding]; other site 1116231004991 uridine monophosphate binding site [chemical binding]; other site 1116231004992 homohexameric interface [polypeptide binding]; other site 1116231004993 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 1116231004994 mRNA/rRNA interface [nucleotide binding]; other site 1116231004995 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1116231004996 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 1116231004997 23S rRNA interface [nucleotide binding]; other site 1116231004998 L7/L12 interface [polypeptide binding]; other site 1116231004999 putative thiostrepton binding site; other site 1116231005000 L25 interface [polypeptide binding]; other site 1116231005001 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 1116231005002 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1116231005003 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1116231005004 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1116231005005 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1116231005006 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1116231005007 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 1116231005008 active site 1116231005009 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1116231005010 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 1116231005011 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1116231005012 FeoA domain; Region: FeoA; pfam04023 1116231005013 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1116231005014 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1116231005015 DNA-directed RNA polymerase subunit B'; Validated; Region: PRK07225 1116231005016 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 1116231005017 dimer interface [polypeptide binding]; other site 1116231005018 ADP-ribose binding site [chemical binding]; other site 1116231005019 active site 1116231005020 nudix motif; other site 1116231005021 metal binding site [ion binding]; metal-binding site 1116231005022 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1116231005023 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1116231005024 Substrate binding site; other site 1116231005025 Mg++ binding site; other site 1116231005026 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 1116231005027 active site 1116231005028 substrate binding site [chemical binding]; other site 1116231005029 CoA binding site [chemical binding]; other site 1116231005030 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1116231005031 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1116231005032 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 1116231005033 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 1116231005034 classical (c) SDRs; Region: SDR_c; cd05233 1116231005035 NAD(P) binding site [chemical binding]; other site 1116231005036 active site 1116231005037 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 1116231005038 hypothetical protein; Validated; Region: PRK07668 1116231005039 Predicted transcriptional regulators [Transcription]; Region: COG1695 1116231005040 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1116231005041 FemAB family; Region: FemAB; pfam02388 1116231005042 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1116231005043 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1116231005044 active site 1116231005045 HIGH motif; other site 1116231005046 KMSKS motif; other site 1116231005047 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1116231005048 tRNA binding surface [nucleotide binding]; other site 1116231005049 anticodon binding site; other site 1116231005050 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 1116231005051 dimer interface [polypeptide binding]; other site 1116231005052 putative tRNA-binding site [nucleotide binding]; other site 1116231005054 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1116231005055 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1116231005056 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 1116231005057 Predicted integral membrane protein [Function unknown]; Region: COG5658 1116231005058 SdpI/YhfL protein family; Region: SdpI; pfam13630 1116231005059 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 1116231005060 dimerization interface [polypeptide binding]; other site 1116231005061 putative DNA binding site [nucleotide binding]; other site 1116231005062 putative Zn2+ binding site [ion binding]; other site 1116231005063 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1116231005064 active site 1116231005065 putative catalytic site [active] 1116231005066 DNA binding site [nucleotide binding] 1116231005067 putative phosphate binding site [ion binding]; other site 1116231005068 metal binding site A [ion binding]; metal-binding site 1116231005069 AP binding site [nucleotide binding]; other site 1116231005070 metal binding site B [ion binding]; metal-binding site 1116231005071 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1116231005072 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 1116231005073 ArsC family; Region: ArsC; pfam03960 1116231005074 putative ArsC-like catalytic residues; other site 1116231005075 putative TRX-like catalytic residues [active] 1116231005076 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1116231005077 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 1116231005078 DNA binding site [nucleotide binding] 1116231005079 active site 1116231005080 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 1116231005081 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 1116231005082 putative ligand binding site [chemical binding]; other site 1116231005083 putative NAD binding site [chemical binding]; other site 1116231005084 putative catalytic site [active] 1116231005085 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1116231005086 L-serine binding site [chemical binding]; other site 1116231005087 ACT domain interface; other site 1116231005088 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 1116231005089 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1116231005090 catalytic residue [active] 1116231005091 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1116231005092 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1116231005093 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1116231005094 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1116231005095 Predicted methyltransferases [General function prediction only]; Region: COG0313 1116231005096 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1116231005097 putative SAM binding site [chemical binding]; other site 1116231005098 putative homodimer interface [polypeptide binding]; other site 1116231005099 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 1116231005100 PSP1 C-terminal conserved region; Region: PSP1; cl00770 1116231005101 DNA polymerase III subunit delta'; Validated; Region: PRK07276 1116231005102 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1116231005103 thymidylate kinase; Validated; Region: tmk; PRK00698 1116231005104 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 1116231005105 TMP-binding site; other site 1116231005106 ATP-binding site [chemical binding]; other site 1116231005107 FOG: CBS domain [General function prediction only]; Region: COG0517 1116231005108 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 1116231005109 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 1116231005110 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1116231005111 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1116231005112 Walker A/P-loop; other site 1116231005113 ATP binding site [chemical binding]; other site 1116231005114 Q-loop/lid; other site 1116231005115 ABC transporter signature motif; other site 1116231005116 Walker B; other site 1116231005117 D-loop; other site 1116231005118 H-loop/switch region; other site 1116231005119 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1116231005120 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1116231005121 Walker A/P-loop; other site 1116231005122 ATP binding site [chemical binding]; other site 1116231005123 Q-loop/lid; other site 1116231005124 ABC transporter signature motif; other site 1116231005125 Walker B; other site 1116231005126 D-loop; other site 1116231005127 H-loop/switch region; other site 1116231005128 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 1116231005129 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1116231005130 TM-ABC transporter signature motif; other site 1116231005131 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1116231005132 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 1116231005133 TM-ABC transporter signature motif; other site 1116231005134 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1116231005135 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 1116231005136 putative ligand binding site [chemical binding]; other site 1116231005137 Protein of unknown function (DUF964); Region: DUF964; pfam06133 1116231005138 hypothetical protein; Provisional; Region: PRK02302 1116231005139 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1116231005140 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1116231005141 oligomer interface [polypeptide binding]; other site 1116231005142 active site residues [active] 1116231005143 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1116231005144 EamA-like transporter family; Region: EamA; pfam00892 1116231005145 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1116231005146 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1116231005147 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 1116231005148 dimerization interface [polypeptide binding]; other site 1116231005149 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1116231005150 active site 1116231005151 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1116231005152 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 1116231005153 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231005154 homodimer interface [polypeptide binding]; other site 1116231005155 catalytic residue [active] 1116231005156 cystathionine gamma-synthase; Reviewed; Region: PRK07269 1116231005157 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1116231005158 homodimer interface [polypeptide binding]; other site 1116231005159 substrate-cofactor binding pocket; other site 1116231005160 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231005161 catalytic residue [active] 1116231005162 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1116231005163 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1116231005164 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 1116231005165 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1116231005166 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1116231005167 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1116231005168 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1116231005169 Walker A/P-loop; other site 1116231005170 ATP binding site [chemical binding]; other site 1116231005171 Q-loop/lid; other site 1116231005172 ABC transporter signature motif; other site 1116231005173 Walker B; other site 1116231005174 D-loop; other site 1116231005175 H-loop/switch region; other site 1116231005176 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1116231005177 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1116231005178 intersubunit interface [polypeptide binding]; other site 1116231005179 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1116231005180 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 1116231005181 ABC-ATPase subunit interface; other site 1116231005182 dimer interface [polypeptide binding]; other site 1116231005183 putative PBP binding regions; other site 1116231005184 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1116231005185 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 1116231005186 ABC-ATPase subunit interface; other site 1116231005187 dimer interface [polypeptide binding]; other site 1116231005188 putative PBP binding regions; other site 1116231005189 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1116231005190 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1116231005191 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; pfam05708 1116231005192 hypothetical protein; Validated; Region: PRK02101 1116231005193 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1116231005194 DHH family; Region: DHH; pfam01368 1116231005195 DHHA2 domain; Region: DHHA2; pfam02833 1116231005196 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 1116231005197 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 1116231005198 FeS/SAM binding site; other site 1116231005199 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1116231005200 Domain of unknown function DUF21; Region: DUF21; pfam01595 1116231005201 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 1116231005202 Transporter associated domain; Region: CorC_HlyC; smart01091 1116231005203 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1116231005204 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1116231005205 Walker A/P-loop; other site 1116231005206 ATP binding site [chemical binding]; other site 1116231005207 Q-loop/lid; other site 1116231005208 ABC transporter signature motif; other site 1116231005209 Walker B; other site 1116231005210 D-loop; other site 1116231005211 H-loop/switch region; other site 1116231005212 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1116231005213 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 1116231005214 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1116231005215 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 1116231005216 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1116231005217 active site 1116231005218 Predicted membrane protein [Function unknown]; Region: COG2510 1116231005219 Predicted membrane protein [Function unknown]; Region: COG3601 1116231005220 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1116231005221 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1116231005222 similar to putative short-chain dehydrogenase 1116231005223 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1116231005224 Amino acid permease; Region: AA_permease_2; pfam13520 1116231005225 K+ potassium transporter; Region: K_trans; cl15781 1116231005226 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1116231005227 TrkA-N domain; Region: TrkA_N; pfam02254 1116231005228 TrkA-C domain; Region: TrkA_C; pfam02080 1116231005229 TrkA-N domain; Region: TrkA_N; pfam02254 1116231005230 TrkA-C domain; Region: TrkA_C; pfam02080 1116231005231 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1116231005232 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1116231005233 hypothetical protein; Validated; Region: PRK00041 1116231005234 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1116231005235 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 1116231005236 RNA binding surface [nucleotide binding]; other site 1116231005237 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1116231005238 active site 1116231005239 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 1116231005240 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1116231005241 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 1116231005242 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 1116231005243 active site 1116231005244 Int/Topo IB signature motif; other site 1116231005245 catalytic residues [active] 1116231005246 DNA binding site [nucleotide binding] 1116231005247 FOG: CBS domain [General function prediction only]; Region: COG0517 1116231005248 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 1116231005249 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1116231005250 active site 1116231005251 metal binding site [ion binding]; metal-binding site 1116231005252 homotetramer interface [polypeptide binding]; other site 1116231005253 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 1116231005254 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 1116231005255 active site 1116231005256 dimerization interface [polypeptide binding]; other site 1116231005257 glutamate racemase; Provisional; Region: PRK00865 1116231005258 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 1116231005260 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1116231005261 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1116231005262 active site 1116231005263 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1116231005264 substrate binding site [chemical binding]; other site 1116231005265 catalytic residues [active] 1116231005266 dimer interface [polypeptide binding]; other site 1116231005267 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1116231005268 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1116231005269 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1116231005270 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1116231005271 Zn2+ binding site [ion binding]; other site 1116231005272 Mg2+ binding site [ion binding]; other site 1116231005273 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1116231005274 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1116231005275 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1116231005276 acylphosphatase; Provisional; Region: PRK14434 1116231005277 OxaA-like protein precursor; Provisional; Region: PRK02463 1116231005278 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1116231005279 Helix-turn-helix domain; Region: HTH_38; pfam13936 1116231005280 Winged helix-turn helix; Region: HTH_29; pfam13551 1116231005281 Homeodomain-like domain; Region: HTH_32; pfam13565 1116231005282 Integrase core domain; Region: rve; pfam00665 1116231005283 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1116231005284 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1116231005285 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1116231005286 YceG-like family; Region: YceG; pfam02618 1116231005287 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1116231005288 dimerization interface [polypeptide binding]; other site 1116231005291 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1116231005292 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1116231005293 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1116231005294 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1116231005295 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1116231005296 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1116231005297 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1116231005298 Coenzyme A binding pocket [chemical binding]; other site 1116231005299 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231005300 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231005301 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1116231005302 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1116231005303 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1116231005304 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1116231005305 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1116231005306 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1116231005307 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 1116231005308 ATP binding site [chemical binding]; other site 1116231005309 putative Mg++ binding site [ion binding]; other site 1116231005310 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1116231005311 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 1116231005312 nucleotide binding region [chemical binding]; other site 1116231005313 ATP-binding site [chemical binding]; other site 1116231005314 GTP-binding protein Der; Reviewed; Region: PRK00093 1116231005315 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1116231005316 G1 box; other site 1116231005317 GTP/Mg2+ binding site [chemical binding]; other site 1116231005318 Switch I region; other site 1116231005319 G2 box; other site 1116231005320 Switch II region; other site 1116231005321 G3 box; other site 1116231005322 G4 box; other site 1116231005323 G5 box; other site 1116231005324 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1116231005325 G1 box; other site 1116231005326 GTP/Mg2+ binding site [chemical binding]; other site 1116231005327 Switch I region; other site 1116231005328 G2 box; other site 1116231005329 G3 box; other site 1116231005330 Switch II region; other site 1116231005331 G4 box; other site 1116231005332 G5 box; other site 1116231005333 primosomal protein DnaI; Reviewed; Region: PRK08939 1116231005334 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1116231005335 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 1116231005336 Walker A motif; other site 1116231005337 ATP binding site [chemical binding]; other site 1116231005338 Walker B motif; other site 1116231005339 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1116231005340 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1116231005341 ATP cone domain; Region: ATP-cone; pfam03477 1116231005342 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1116231005343 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 1116231005344 dimerization interface [polypeptide binding]; other site 1116231005345 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 1116231005346 dimer interface [polypeptide binding]; other site 1116231005347 phosphorylation site [posttranslational modification] 1116231005348 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 1116231005349 ATP binding site [chemical binding]; other site 1116231005350 Mg2+ binding site [ion binding]; other site 1116231005351 G-X-G motif; other site 1116231005352 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1116231005353 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 1116231005354 active site 1116231005355 phosphorylation site [posttranslational modification] 1116231005356 intermolecular recognition site; other site 1116231005357 dimerization interface [polypeptide binding]; other site 1116231005358 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 1116231005359 DNA binding site [nucleotide binding] 1116231005360 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 1116231005361 heat shock protein HtpX; Provisional; Region: PRK04897 1116231005362 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1116231005363 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1116231005364 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 1116231005365 S-adenosylmethionine binding site [chemical binding]; other site 1116231005366 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1116231005367 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1116231005368 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1116231005369 TrkA-N domain; Region: TrkA_N; pfam02254 1116231005370 TrkA-C domain; Region: TrkA_C; pfam02080 1116231005371 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1116231005372 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1116231005373 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1116231005374 Walker A/P-loop; other site 1116231005375 ATP binding site [chemical binding]; other site 1116231005376 Q-loop/lid; other site 1116231005377 ABC transporter signature motif; other site 1116231005378 Walker B; other site 1116231005379 D-loop; other site 1116231005380 H-loop/switch region; other site 1116231005381 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 1116231005382 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1116231005383 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1116231005384 Walker A/P-loop; other site 1116231005385 ATP binding site [chemical binding]; other site 1116231005386 Q-loop/lid; other site 1116231005387 ABC transporter signature motif; other site 1116231005388 Walker B; other site 1116231005389 D-loop; other site 1116231005390 H-loop/switch region; other site 1116231005391 hypothetical protein; Provisional; Region: PRK13661 1116231005392 Uncharacterized conserved protein [Function unknown]; Region: COG1912 1116231005393 serine/threonine transporter SstT; Provisional; Region: PRK13628 1116231005394 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1116231005395 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1116231005396 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1116231005397 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1116231005398 NAD binding site [chemical binding]; other site 1116231005399 substrate binding site [chemical binding]; other site 1116231005400 putative active site [active] 1116231005401 Predicted transcriptional regulator [Transcription]; Region: COG1959 1116231005402 Transcriptional regulator; Region: Rrf2; pfam02082 1116231005403 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 1116231005404 dimer interface [polypeptide binding]; other site 1116231005405 conserved gate region; other site 1116231005406 ABC-ATPase subunit interface; other site 1116231005407 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1116231005408 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1116231005409 Walker A/P-loop; other site 1116231005410 ATP binding site [chemical binding]; other site 1116231005411 Q-loop/lid; other site 1116231005412 ABC transporter signature motif; other site 1116231005413 Walker B; other site 1116231005414 D-loop; other site 1116231005415 H-loop/switch region; other site 1116231005416 NIL domain; Region: NIL; pfam09383 1116231005417 hypothetical protein; Provisional; Region: PRK06446 1116231005418 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 1116231005419 metal binding site [ion binding]; metal-binding site 1116231005420 dimer interface [polypeptide binding]; other site 1116231005421 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1116231005422 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1116231005423 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1116231005424 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 1116231005425 substrate binding pocket [chemical binding]; other site 1116231005426 membrane-bound complex binding site; other site 1116231005427 hinge residues; other site 1116231005428 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1116231005429 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1116231005430 metal binding site [ion binding]; metal-binding site 1116231005431 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1116231005432 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 1116231005433 substrate binding pocket [chemical binding]; other site 1116231005434 membrane-bound complex binding site; other site 1116231005435 hinge residues; other site 1116231005436 Peptidase C26; Region: Peptidase_C26; pfam07722 1116231005437 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1116231005438 catalytic triad [active] 1116231005439 hypothetical protein; Provisional; Region: PRK12378 1116231005441 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1116231005442 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1116231005443 DNA binding residues [nucleotide binding] 1116231005444 dimer interface [polypeptide binding]; other site 1116231005445 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1116231005446 hypothetical protein; Provisional; Region: PRK13670 1116231005447 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 1116231005448 similar to Hypothetical protein 1116231005449 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 1116231005450 S-adenosylmethionine binding site [chemical binding]; other site 1116231005451 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1116231005452 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1116231005453 Zn2+ binding site [ion binding]; other site 1116231005454 Mg2+ binding site [ion binding]; other site 1116231005455 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1116231005456 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1116231005457 active site 1116231005458 (T/H)XGH motif; other site 1116231005459 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1116231005460 GTPase YqeH; Provisional; Region: PRK13796 1116231005461 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1116231005462 GTP/Mg2+ binding site [chemical binding]; other site 1116231005463 G4 box; other site 1116231005464 G5 box; other site 1116231005465 G1 box; other site 1116231005466 Switch I region; other site 1116231005467 G2 box; other site 1116231005468 G3 box; other site 1116231005469 Switch II region; other site 1116231005470 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1116231005471 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 1116231005472 active site 1116231005473 motif I; other site 1116231005474 motif II; other site 1116231005475 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 1116231005476 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1116231005477 putative substrate translocation pore; other site 1116231005478 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 1116231005479 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1116231005480 MarR family; Region: MarR_2; pfam12802 1116231005481 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1116231005482 EamA-like transporter family; Region: EamA; pfam00892 1116231005483 EamA-like transporter family; Region: EamA; pfam00892 1116231005484 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1116231005485 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1116231005486 GatB domain; Region: GatB_Yqey; pfam02637 1116231005487 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1116231005488 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1116231005489 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1116231005491 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231005492 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231005493 Isochorismatase family; Region: Isochorismatase; pfam00857 1116231005494 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 1116231005495 catalytic triad [active] 1116231005496 conserved cis-peptide bond; other site 1116231005497 transcriptional repressor CodY; Validated; Region: PRK04158 1116231005498 CodY GAF-like domain; Region: CodY; pfam06018 1116231005499 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 1116231005500 putative DNA binding site [nucleotide binding]; other site 1116231005501 putative Zn2+ binding site [ion binding]; other site 1116231005502 aminotransferase AlaT; Validated; Region: PRK09265 1116231005503 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 1116231005504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1116231005505 homodimer interface [polypeptide binding]; other site 1116231005506 catalytic residue [active] 1116231005507 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 1116231005508 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1116231005509 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1116231005510 active site 1116231005511 catalytic site [active] 1116231005512 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 1116231005513 Ligand Binding Site [chemical binding]; other site 1116231005514 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 1116231005515 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1116231005516 active site 1116231005517 motif I; other site 1116231005518 motif II; other site 1116231005519 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 1116231005520 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1116231005521 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4696 1116231005522 metal binding site [ion binding]; metal-binding site 1116231005523 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1116231005524 active site 1116231005525 homotetramer interface [polypeptide binding]; other site 1116231005526 homodimer interface [polypeptide binding]; other site 1116231005527 Predicted transcriptional regulator [Transcription]; Region: COG3655 1116231005529 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231005530 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231005531 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1116231005532 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 1116231005533 generic binding surface II; other site 1116231005534 ssDNA binding site; other site 1116231005535 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 1116231005536 ATP binding site [chemical binding]; other site 1116231005537 putative Mg++ binding site [ion binding]; other site 1116231005538 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 1116231005539 nucleotide binding region [chemical binding]; other site 1116231005540 ATP-binding site [chemical binding]; other site 1116231005541 alanine racemase; Reviewed; Region: alr; PRK00053 1116231005542 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1116231005543 active site 1116231005544 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1116231005545 dimer interface [polypeptide binding]; other site 1116231005546 substrate binding site [chemical binding]; other site 1116231005547 catalytic residues [active] 1116231005548 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1116231005549 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; cl17260 1116231005550 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1116231005551 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; cl17260 1116231005552 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1116231005553 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1116231005554 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1116231005555 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 1116231005556 nucleotide binding region [chemical binding]; other site 1116231005557 ATP-binding site [chemical binding]; other site 1116231005558 SEC-C motif; Region: SEC-C; pfam02810 1116231005559 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1116231005560 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1116231005561 nucleotide binding site [chemical binding]; other site 1116231005562 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1116231005563 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1116231005564 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 1116231005565 active site turn [active] 1116231005566 phosphorylation site [posttranslational modification] 1116231005567 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1116231005568 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 1116231005569 HPr interaction site; other site 1116231005570 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1116231005571 active site 1116231005572 phosphorylation site [posttranslational modification] 1116231005573 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 1116231005574 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1116231005575 substrate binding [chemical binding]; other site 1116231005576 active site 1116231005577 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1116231005578 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1116231005579 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1116231005580 DNA binding site [nucleotide binding] 1116231005581 domain linker motif; other site 1116231005582 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 1116231005583 dimerization interface [polypeptide binding]; other site 1116231005584 ligand binding site [chemical binding]; other site 1116231005585 sodium binding site [ion binding]; other site 1116231005586 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1116231005587 putative RNA binding site [nucleotide binding]; other site 1116231005588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1116231005589 elongation factor P; Validated; Region: PRK00529 1116231005590 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1116231005591 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 1116231005592 RNA binding site [nucleotide binding]; other site 1116231005593 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 1116231005594 RNA binding site [nucleotide binding]; other site 1116231005595 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 1116231005596 catalytic motif [active] 1116231005597 Zn binding site [ion binding]; other site 1116231005598 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1116231005599 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1116231005600 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 1116231005601 active site 1116231005602 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1116231005603 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1116231005604 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1116231005605 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1116231005606 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1116231005607 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1116231005608 Cl binding site [ion binding]; other site 1116231005609 oligomer interface [polypeptide binding]; other site 1116231005610 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 1116231005612 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 1116231005613 non-specific DNA binding site [nucleotide binding]; other site 1116231005614 salt bridge; other site 1116231005615 sequence-specific DNA binding site [nucleotide binding]; other site 1116231005617 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1116231005618 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1116231005619 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 1116231005620 dimer interface [polypeptide binding]; other site 1116231005621 ssDNA binding site [nucleotide binding]; other site 1116231005622 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1116231005623 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1116231005624 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1116231005625 Transposase; Region: HTH_Tnp_1; pfam01527 1116231005627 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 1116231005628 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1116231005629 Integrase core domain; Region: rve; pfam00665 1116231005632 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1116231005633 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1116231005634 minor groove reading motif; other site 1116231005635 helix-hairpin-helix signature motif; other site 1116231005636 substrate binding pocket [chemical binding]; other site 1116231005637 active site 1116231005638 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 1116231005639 DNA binding and oxoG recognition site [nucleotide binding] 1116231005640 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 1116231005642 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1116231005643 Predicted flavoprotein [General function prediction only]; Region: COG0431 1116231005645 Predicted flavoprotein [General function prediction only]; Region: COG0431 1116231005646 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1116231005647 FMN-binding domain; Region: FMN_bind; pfam04205 1116231005648 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 1116231005649 L-aspartate oxidase; Provisional; Region: PRK06175 1116231005650 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 1116231005651 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1116231005652 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 1116231005653 catalytic Zn binding site [ion binding]; other site 1116231005654 NAD(P) binding site [chemical binding]; other site 1116231005655 structural Zn binding site [ion binding]; other site 1116231005656 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 1116231005657 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1116231005658 catalytic residues [active] 1116231005659 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1116231005660 active site 1116231005661 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1116231005662 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 1116231005663 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 1116231005664 dimerization interface [polypeptide binding]; other site 1116231005665 active site 1116231005666 potential frameshift: common BLAST hit: gi|325979088|ref|YP_004288804.1| L-aspartate oxidase 1116231005667 L-aspartate oxidase; Provisional; Region: PRK06175 1116231005668 potential frameshift: common BLAST hit: gi|325979088|ref|YP_004288804.1| L-aspartate oxidase 1116231005669 L-aspartate oxidase; Provisional; Region: PRK06175 1116231005670 L-aspartate oxidase; Provisional; Region: PRK06175 1116231005673 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231005674 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231005675 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 1116231005676 MutS domain III; Region: MutS_III; pfam05192 1116231005677 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1116231005678 Walker A/P-loop; other site 1116231005679 ATP binding site [chemical binding]; other site 1116231005680 Q-loop/lid; other site 1116231005681 ABC transporter signature motif; other site 1116231005682 Walker B; other site 1116231005683 D-loop; other site 1116231005684 H-loop/switch region; other site 1116231005685 Smr domain; Region: Smr; pfam01713 1116231005686 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1116231005687 Colicin V production protein; Region: Colicin_V; pfam02674 1116231005688 ribonuclease HIII; Provisional; Region: PRK00996 1116231005689 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1116231005690 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 1116231005691 RNA/DNA hybrid binding site [nucleotide binding]; other site 1116231005692 active site 1116231005693 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1116231005694 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 1116231005695 Catalytic site [active] 1116231005696 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 1116231005697 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1116231005698 AAA domain; Region: AAA_30; pfam13604 1116231005699 Family description; Region: UvrD_C_2; pfam13538 1116231005700 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1116231005701 active site 1116231005702 DNA polymerase IV; Validated; Region: PRK02406 1116231005703 DNA binding site [nucleotide binding] 1116231005704 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1116231005705 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1116231005706 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1116231005707 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1116231005708 Coenzyme A binding pocket [chemical binding]; other site 1116231005709 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1116231005710 Beta-lactamase; Region: Beta-lactamase; pfam00144 1116231005711 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1116231005712 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1116231005714 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 1116231005715 amphipathic channel; other site 1116231005716 Asn-Pro-Ala signature motifs; other site 1116231005717 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 1116231005718 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; pfam09168 1116231005719 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 1116231005720 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1116231005721 PAS domain; Region: PAS; smart00091 1116231005722 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 1116231005723 dimer interface [polypeptide binding]; other site 1116231005724 phosphorylation site [posttranslational modification] 1116231005725 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 1116231005726 ATP binding site [chemical binding]; other site 1116231005727 Mg2+ binding site [ion binding]; other site 1116231005728 G-X-G motif; other site 1116231005729 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 1116231005730 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1116231005731 active site 1116231005732 phosphorylation site [posttranslational modification] 1116231005733 intermolecular recognition site; other site 1116231005734 dimerization interface [polypeptide binding]; other site 1116231005735 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 1116231005736 DNA binding site [nucleotide binding] 1116231005737 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1116231005738 PhoU domain; Region: PhoU; pfam01895 1116231005739 PhoU domain; Region: PhoU; pfam01895 1116231005740 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 1116231005741 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1116231005742 Walker A/P-loop; other site 1116231005743 ATP binding site [chemical binding]; other site 1116231005744 Q-loop/lid; other site 1116231005745 ABC transporter signature motif; other site 1116231005746 Walker B; other site 1116231005747 D-loop; other site 1116231005748 H-loop/switch region; other site 1116231005749 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1116231005750 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 1116231005751 dimer interface [polypeptide binding]; other site 1116231005752 conserved gate region; other site 1116231005753 putative PBP binding loops; other site 1116231005754 ABC-ATPase subunit interface; other site 1116231005755 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1116231005756 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 1116231005757 dimer interface [polypeptide binding]; other site 1116231005758 conserved gate region; other site 1116231005759 putative PBP binding loops; other site 1116231005760 ABC-ATPase subunit interface; other site 1116231005761 PBP superfamily domain; Region: PBP_like_2; cl17296 1116231005762 PBP superfamily domain; Region: PBP_like_2; cl17296 1116231005763 hypothetical protein; Validated; Region: PRK00153 1116231005764 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1116231005765 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1116231005766 DNA binding residues [nucleotide binding] 1116231005767 dimer interface [polypeptide binding]; other site 1116231005768 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1116231005769 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1116231005770 active site 1116231005771 catalytic site [active] 1116231005772 substrate binding site [chemical binding]; other site 1116231005773 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; cl17220 1116231005774 HI0933-like protein; Region: HI0933_like; pfam03486 1116231005775 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1116231005776 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 1116231005777 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1116231005779 Predicted membrane protein [Function unknown]; Region: COG4392 1116231005780 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1116231005781 UGMP family protein; Validated; Region: PRK09604 1116231005782 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1116231005783 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1116231005784 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1116231005785 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1116231005786 Coenzyme A binding pocket [chemical binding]; other site 1116231005787 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1116231005788 Glycoprotease family; Region: Peptidase_M22; pfam00814 1116231005789 hypothetical protein; Provisional; Region: PRK13667 1116231005790 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1116231005791 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1116231005792 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1116231005794 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1116231005795 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1116231005796 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1116231005797 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1116231005798 active site 1116231005799 dimer interface [polypeptide binding]; other site 1116231005800 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1116231005801 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 1116231005802 active site 1116231005803 FMN binding site [chemical binding]; other site 1116231005804 substrate binding site [chemical binding]; other site 1116231005805 3Fe-4S cluster binding site [ion binding]; other site 1116231005806 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1116231005807 domain interface; other site 1116231005808 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1116231005809 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1116231005810 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1116231005811 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1116231005812 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1116231005813 DNA binding residues [nucleotide binding] 1116231005814 putative dimer interface [polypeptide binding]; other site 1116231005815 Predicted membrane protein [Function unknown]; Region: COG4129 1116231005816 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1116231005817 Phosphoglycerate kinase; Region: PGK; pfam00162 1116231005818 substrate binding site [chemical binding]; other site 1116231005819 hinge regions; other site 1116231005820 ADP binding site [chemical binding]; other site 1116231005821 catalytic site [active] 1116231005822 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1116231005823 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1116231005824 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1116231005825 elongation factor G; Reviewed; Region: PRK00007 1116231005826 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1116231005827 G1 box; other site 1116231005828 putative GEF interaction site [polypeptide binding]; other site 1116231005829 GTP/Mg2+ binding site [chemical binding]; other site 1116231005830 Switch I region; other site 1116231005831 G2 box; other site 1116231005832 G3 box; other site 1116231005833 Switch II region; other site 1116231005834 G4 box; other site 1116231005835 G5 box; other site 1116231005836 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 1116231005837 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 1116231005838 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 1116231005839 30S ribosomal protein S7; Validated; Region: PRK05302 1116231005840 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 1116231005841 S17 interaction site [polypeptide binding]; other site 1116231005842 S8 interaction site; other site 1116231005843 16S rRNA interaction site [nucleotide binding]; other site 1116231005844 streptomycin interaction site [chemical binding]; other site 1116231005845 23S rRNA interaction site [nucleotide binding]; other site 1116231005846 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1116231005848 pur operon repressor; Provisional; Region: PRK09213 1116231005849 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1116231005850 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1116231005851 active site 1116231005852 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 1116231005853 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 1116231005854 generic binding surface II; other site 1116231005855 generic binding surface I; other site 1116231005856 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1116231005857 Zn2+ binding site [ion binding]; other site 1116231005858 Mg2+ binding site [ion binding]; other site 1116231005859 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1116231005860 RmuC family; Region: RmuC; pfam02646 1116231005861 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1116231005862 Thiamine pyrophosphokinase; Region: TPK; cd07995 1116231005863 active site 1116231005864 dimerization interface [polypeptide binding]; other site 1116231005865 thiamine binding site [chemical binding]; other site 1116231005866 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1116231005867 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 1116231005868 substrate binding site [chemical binding]; other site 1116231005869 hexamer interface [polypeptide binding]; other site 1116231005870 metal binding site [ion binding]; metal-binding site 1116231005871 GTPase RsgA; Reviewed; Region: PRK00098 1116231005872 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 1116231005873 RNA binding site [nucleotide binding]; other site 1116231005874 homodimer interface [polypeptide binding]; other site 1116231005875 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1116231005876 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1116231005877 GTP/Mg2+ binding site [chemical binding]; other site 1116231005878 G4 box; other site 1116231005879 G1 box; other site 1116231005880 Switch I region; other site 1116231005881 G2 box; other site 1116231005882 G3 box; other site 1116231005883 Switch II region; other site 1116231005884 sensory histidine kinase DcuS; Provisional; Region: PRK11086 1116231005885 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1116231005886 Protein of unknown function (DUF3884); Region: DUF3884; pfam13024 1116231005887 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1116231005888 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1116231005889 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1116231005890 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 1116231005891 active site 1116231005892 phosphorylation site [posttranslational modification] 1116231005893 intermolecular recognition site; other site 1116231005894 dimerization interface [polypeptide binding]; other site 1116231005895 LytTr DNA-binding domain; Region: LytTR; pfam04397 1116231005896 LytTr DNA-binding domain; Region: LytTR; pfam04397 1116231005897 putative transposase OrfB; Reviewed; Region: PHA02517 1116231005898 HTH-like domain; Region: HTH_21; pfam13276 1116231005899 Integrase core domain; Region: rve; pfam00665 1116231005900 Integrase core domain; Region: rve_3; pfam13683 1116231005901 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1116231005902 Transposase; Region: HTH_Tnp_1; pfam01527 1116231005904 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 1116231005905 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 1116231005906 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 1116231005907 ATP binding site [chemical binding]; other site 1116231005908 substrate interface [chemical binding]; other site 1116231005909 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1116231005910 MULE transposase domain; Region: MULE; pfam10551 1116231005911 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 1116231005913 COMC family; Region: ComC; pfam03047 1116231005915 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 1116231005916 HlyD family secretion protein; Region: HlyD_3; pfam13437 1116231005917 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1116231005918 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 1116231005919 S-adenosylmethionine binding site [chemical binding]; other site 1116231005920 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 1116231005921 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1116231005922 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 1116231005923 putative active site [active] 1116231005924 putative metal binding site [ion binding]; other site 1116231005925 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1116231005926 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1116231005927 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1116231005928 active site 1116231005929 potential frameshift: common BLAST hit: gi|288906218|ref|YP_003431440.1| collagen Binding Protein, peptidoglycan linked protein (LPXTG 1116231005930 Cna protein B-type domain; Region: Cna_B; pfam05738 1116231005931 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1116231005933 TQXA domain; Region: TQXA_dom; TIGR03934 1116231005934 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1116231005935 domain interaction interfaces [polypeptide binding]; other site 1116231005936 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1116231005937 domain interaction interfaces [polypeptide binding]; other site 1116231005938 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1116231005939 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1116231005940 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1116231005941 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 1116231005942 motif II; other site 1116231005944 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 1116231005945 active site 1116231005946 catalytic site [active] 1116231005947 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1116231005948 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1116231005949 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1116231005950 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1116231005951 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 1116231005952 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1116231005953 Catalytic site [active] 1116231005955 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 1116231005956 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1116231005957 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1116231005958 intersubunit interface [polypeptide binding]; other site 1116231005959 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 1116231005960 malate dehydrogenase; Provisional; Region: PRK13529 1116231005961 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1116231005962 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1116231005963 NAD(P) binding site [chemical binding]; other site 1116231005964 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1116231005965 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1116231005966 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 1116231005967 dimerization interface [polypeptide binding]; other site 1116231005969 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 1116231005970 DltD N-terminal region; Region: DltD_N; pfam04915 1116231005971 DltD central region; Region: DltD_M; pfam04918 1116231005972 DltD C-terminal region; Region: DltD_C; pfam04914 1116231005973 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 1116231005974 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 1116231005975 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1116231005976 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1116231005977 acyl-activating enzyme (AAE) consensus motif; other site 1116231005978 AMP binding site [chemical binding]; other site 1116231005979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 1116231005980 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 1116231005981 V-type ATP synthase subunit B; Provisional; Region: PRK04196 1116231005982 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1116231005983 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 1116231005984 Walker A motif homologous position; other site 1116231005985 Walker B motif; other site 1116231005986 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1116231005988 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 1116231005989 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1116231005990 Fic/DOC family; Region: Fic; pfam02661 1116231005991 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1116231005992 HTH-like domain; Region: HTH_21; pfam13276 1116231005993 Integrase core domain; Region: rve; pfam00665 1116231005994 Integrase core domain; Region: rve_3; pfam13683 1116231005996 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 1116231005997 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1116231005998 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1116231005999 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1116231006000 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 1116231006001 metal-binding site [ion binding] 1116231006002 potential frameshift: common BLAST hit: gi|328958202|ref|YP_004375588.1| copper transporter ATPase 1116231006003 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1116231006004 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1116231006005 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 1116231006006 motif II; other site 1116231006007 potential frameshift: common BLAST hit: gi|328958202|ref|YP_004375588.1| copper transporter ATPase 1116231006008 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1116231006009 potential frameshift: common BLAST hit: gi|328958202|ref|YP_004375588.1| copper transporter ATPase 1116231006010 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1116231006011 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 1116231006012 metal-binding site [ion binding] 1116231006013 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1116231006014 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 1116231006015 metal-binding site [ion binding] 1116231006016 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1116231006017 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1116231006020 putative transposase OrfB; Reviewed; Region: PHA02517 1116231006021 HTH-like domain; Region: HTH_21; pfam13276 1116231006022 Integrase core domain; Region: rve; pfam00665 1116231006023 Integrase core domain; Region: rve_3; pfam13683 1116231006024 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1116231006025 Transposase; Region: HTH_Tnp_1; pfam01527 1116231006026 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1116231006027 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1116231006029 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1116231006030 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1116231006031 putative active site [active] 1116231006032 putative NTP binding site [chemical binding]; other site 1116231006033 putative nucleic acid binding site [nucleotide binding]; other site 1116231006034 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1116231006035 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1116231006036 ABC1 family; Region: ABC1; pfam03109 1116231006037 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1116231006038 active site 1116231006039 ATP binding site [chemical binding]; other site 1116231006040 substrate binding site [chemical binding]; other site 1116231006041 ABC1 family; Region: ABC1; cl17513 1116231006042 Uncharacterized conserved protein [Function unknown]; Region: COG3937 1116231006043 DDE superfamily endonuclease; Region: DDE_4; cl17710 1116231006044 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 1116231006047 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1116231006048 Transposase; Region: HTH_Tnp_1; pfam01527 1116231006050 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 1116231006051 putative transposase OrfB; Reviewed; Region: PHA02517 1116231006052 HTH-like domain; Region: HTH_21; pfam13276 1116231006053 Integrase core domain; Region: rve; pfam00665 1116231006054 Integrase core domain; Region: rve_3; pfam13683 1116231006055 Transposase; Region: HTH_Tnp_1; cl17663 1116231006056 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1116231006057 TIR domain; Region: TIR_2; pfam13676 1116231006058 Fic family protein [Function unknown]; Region: COG3177 1116231006060 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1116231006061 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1116231006062 catalytic residues [active] 1116231006063 catalytic nucleophile [active] 1116231006064 Presynaptic Site I dimer interface [polypeptide binding]; other site 1116231006065 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1116231006066 Synaptic Flat tetramer interface [polypeptide binding]; other site 1116231006067 Synaptic Site I dimer interface [polypeptide binding]; other site 1116231006068 DNA binding site [nucleotide binding] 1116231006069 Homeodomain-like domain; Region: HTH_23; cl17451 1116231006070 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1116231006071 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1116231006072 Toprim-like; Region: Toprim_2; pfam13155 1116231006073 Domain of unknown function (DUF955); Region: DUF955; cl01076 1116231006074 DNA topoisomerase III; Provisional; Region: PRK07726 1116231006075 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 1116231006076 active site 1116231006077 putative interdomain interaction site [polypeptide binding]; other site 1116231006078 putative metal-binding site [ion binding]; other site 1116231006079 putative nucleotide binding site [chemical binding]; other site 1116231006080 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 1116231006081 domain I; other site 1116231006082 DNA binding groove [nucleotide binding] 1116231006083 phosphate binding site [ion binding]; other site 1116231006084 domain II; other site 1116231006085 domain III; other site 1116231006086 nucleotide binding site [chemical binding]; other site 1116231006087 catalytic site [active] 1116231006088 domain IV; other site 1116231006090 AAA-like domain; Region: AAA_10; pfam12846 1116231006091 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 1116231006092 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 1116231006093 V-type ATP synthase subunit I; Validated; Region: PRK05771 1116231006094 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1116231006095 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 1116231006096 dimer interface [polypeptide binding]; other site 1116231006097 ssDNA binding site [nucleotide binding]; other site 1116231006098 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1116231006099 Peptidase family M23; Region: Peptidase_M23; pfam01551 1116231006100 CHAP domain; Region: CHAP; pfam05257 1116231006101 AAA-like domain; Region: AAA_10; pfam12846 1116231006102 PrgI family protein; Region: PrgI; pfam12666 1116231006103 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231006104 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231006105 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231006106 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231006107 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231006108 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231006109 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231006110 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1116231006111 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 1116231006112 putative active site [active] 1116231006113 adhesin isopeptide-forming domain, sspB-C2 type; Region: isopep_sspB_C2; TIGR04228 1116231006114 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1116231006115 flagellin; Validated; Region: PRK08026 1116231006117 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 1116231006118 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 1116231006119 LytTr DNA-binding domain; Region: LytTR; smart00850 1116231006120 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1116231006121 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1116231006122 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1116231006123 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231006124 Walker A/P-loop; other site 1116231006125 ATP binding site [chemical binding]; other site 1116231006126 Q-loop/lid; other site 1116231006127 ABC transporter signature motif; other site 1116231006128 Walker B; other site 1116231006129 D-loop; other site 1116231006130 H-loop/switch region; other site 1116231006131 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1116231006132 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1116231006133 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 1116231006134 G-X-X-G motif; other site 1116231006135 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 1116231006136 RxxxH motif; other site 1116231006137 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1116231006138 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1116231006139 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1116231006140 argininosuccinate lyase; Provisional; Region: PRK00855 1116231006141 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1116231006142 active sites [active] 1116231006143 tetramer interface [polypeptide binding]; other site 1116231006144 argininosuccinate synthase; Provisional; Region: PRK13820 1116231006145 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1116231006146 ANP binding site [chemical binding]; other site 1116231006147 Substrate Binding Site II [chemical binding]; other site 1116231006148 Substrate Binding Site I [chemical binding]; other site 1116231006149 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1116231006150 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 1116231006151 putative substrate translocation pore; other site 1116231006152 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1116231006153 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1116231006154 active site 1116231006155 HIGH motif; other site 1116231006156 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1116231006157 active site 1116231006158 KMSKS motif; other site 1116231006161 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1116231006162 Integrase core domain; Region: rve; pfam00665 1116231006163 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1116231006164 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1116231006165 Cl binding site [ion binding]; other site 1116231006166 oligomer interface [polypeptide binding]; other site 1116231006167 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 1116231006168 active site clefts [active] 1116231006169 zinc binding site [ion binding]; other site 1116231006170 dimer interface [polypeptide binding]; other site 1116231006171 DNA repair protein RadA; Provisional; Region: PRK11823 1116231006172 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 1116231006173 Walker A motif/ATP binding site; other site 1116231006174 ATP binding site [chemical binding]; other site 1116231006175 Walker B motif; other site 1116231006176 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1116231006177 similar to Hypothetical protein 1116231006178 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1116231006179 trimer interface [polypeptide binding]; other site 1116231006180 active site 1116231006182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1116231006183 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1116231006184 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1116231006185 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1116231006186 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1116231006187 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1116231006188 active site 1116231006189 tetramer interface; other site 1116231006190 Rhomboid family; Region: Rhomboid; pfam01694 1116231006191 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1116231006192 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1116231006193 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 1116231006194 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1116231006195 metal binding site [ion binding]; metal-binding site 1116231006196 putative dimer interface [polypeptide binding]; other site 1116231006198 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 1116231006199 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 1116231006200 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 1116231006201 trimer interface [polypeptide binding]; other site 1116231006202 active site 1116231006203 substrate binding site [chemical binding]; other site 1116231006204 CoA binding site [chemical binding]; other site 1116231006205 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1116231006206 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 1116231006207 active site 1116231006208 dimer interface [polypeptide binding]; other site 1116231006209 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 1116231006210 dimer interface [polypeptide binding]; other site 1116231006211 active site 1116231006212 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 1116231006213 nucleoside/Zn binding site; other site 1116231006214 dimer interface [polypeptide binding]; other site 1116231006215 catalytic motif [active] 1116231006216 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1116231006217 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1116231006218 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 1116231006219 CHY zinc finger; Region: zf-CHY; pfam05495 1116231006220 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1116231006221 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1116231006222 Protein of unknown function (DUF975); Region: DUF975; cl10504 1116231006223 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1116231006224 metal binding site 2 [ion binding]; metal-binding site 1116231006225 putative DNA binding helix; other site 1116231006226 metal binding site 1 [ion binding]; metal-binding site 1116231006227 dimer interface [polypeptide binding]; other site 1116231006228 structural Zn2+ binding site [ion binding]; other site 1116231006229 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; pfam05870 1116231006231 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1116231006232 DNA polymerase I; Provisional; Region: PRK05755 1116231006233 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1116231006234 active site 1116231006235 metal binding site 1 [ion binding]; metal-binding site 1116231006236 putative 5' ssDNA interaction site; other site 1116231006237 metal binding site 3; metal-binding site 1116231006238 metal binding site 2 [ion binding]; metal-binding site 1116231006239 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1116231006240 putative DNA binding site [nucleotide binding]; other site 1116231006241 putative metal binding site [ion binding]; other site 1116231006242 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 1116231006243 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1116231006244 active site 1116231006245 DNA binding site [nucleotide binding] 1116231006246 catalytic site [active] 1116231006247 Membrane transport protein; Region: Mem_trans; pfam03547 1116231006248 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1116231006249 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1116231006250 similar to Hypothetical protein 1116231006252 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1116231006253 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 1116231006254 GDP-binding site [chemical binding]; other site 1116231006255 ACT binding site; other site 1116231006256 IMP binding site; other site 1116231006257 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1116231006258 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1116231006259 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1116231006260 Uncharacterized protein involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TelA; COG3853 1116231006261 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1116231006262 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 1116231006263 dimerization interface [polypeptide binding]; other site 1116231006264 domain crossover interface; other site 1116231006265 redox-dependent activation switch; other site 1116231006266 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1116231006267 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 1116231006268 FMN binding site [chemical binding]; other site 1116231006269 active site 1116231006270 catalytic residues [active] 1116231006271 substrate binding site [chemical binding]; other site 1116231006272 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1116231006273 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 1116231006274 Walker A motif; other site 1116231006275 ATP binding site [chemical binding]; other site 1116231006276 Walker B motif; other site 1116231006277 arginine finger; other site 1116231006278 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 1116231006279 Walker A motif; other site 1116231006280 ATP binding site [chemical binding]; other site 1116231006281 Walker B motif; other site 1116231006282 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1116231006283 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 1116231006284 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 1116231006285 elongation factor Ts; Provisional; Region: tsf; PRK09377 1116231006286 UBA/TS-N domain; Region: UBA; pfam00627 1116231006287 Elongation factor TS; Region: EF_TS; pfam00889 1116231006288 Elongation factor TS; Region: EF_TS; pfam00889 1116231006289 similar to 30S ribosomal protein S2 1116231006290 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1116231006291 putative dimer interface [polypeptide binding]; other site 1116231006292 catalytic triad [active] 1116231006294 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1116231006295 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1116231006296 active site 1116231006297 Zn binding site [ion binding]; other site 1116231006298 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1116231006299 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1116231006300 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1116231006302 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1116231006303 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1116231006304 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1116231006305 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 1116231006306 Walker A motif; other site 1116231006307 ATP binding site [chemical binding]; other site 1116231006308 Walker B motif; other site 1116231006309 arginine finger; other site 1116231006310 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1116231006311 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1116231006312 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 1116231006313 FeS/SAM binding site; other site 1116231006314 Predicted acetyltransferase [General function prediction only]; Region: COG3981 1116231006315 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1116231006316 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1116231006317 ATP cone domain; Region: ATP-cone; pfam03477 1116231006318 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1116231006319 effector binding site; other site 1116231006320 active site 1116231006321 Zn binding site [ion binding]; other site 1116231006322 glycine loop; other site 1116231006323 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1116231006324 hypothetical protein; Provisional; Region: PRK13678 1116231006325 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1116231006326 hypothetical protein; Provisional; Region: PRK05473 1116231006327 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 1116231006328 ArsC family; Region: ArsC; pfam03960 1116231006329 putative catalytic residues [active] 1116231006330 thiol/disulfide switch; other site 1116231006331 recombinase A; Provisional; Region: recA; PRK09354 1116231006332 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 1116231006333 hexamer interface [polypeptide binding]; other site 1116231006334 Walker A motif; other site 1116231006335 ATP binding site [chemical binding]; other site 1116231006336 Walker B motif; other site 1116231006337 competence damage-inducible protein A; Provisional; Region: PRK00549 1116231006338 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 1116231006339 putative MPT binding site; other site 1116231006340 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1116231006341 potential frameshift: common BLAST hit: gi|288906377|ref|YP_003431599.1| major facilitator superfamily protein (multidrug-efflux 1116231006342 potential frameshift: common BLAST hit: gi|288906377|ref|YP_003431599.1| major facilitator superfamily protein (multidrug-efflux 1116231006343 Transmembrane secretion effector; Region: MFS_3; pfam05977 1116231006344 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1116231006345 RuvA N terminal domain; Region: RuvA_N; pfam01330 1116231006346 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1116231006347 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 1116231006348 ATP binding site [chemical binding]; other site 1116231006349 Mg2+ binding site [ion binding]; other site 1116231006350 G-X-G motif; other site 1116231006351 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 1116231006352 ATP binding site [chemical binding]; other site 1116231006353 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1116231006354 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1116231006355 MutS domain I; Region: MutS_I; pfam01624 1116231006356 MutS domain II; Region: MutS_II; pfam05188 1116231006357 MutS domain III; Region: MutS_III; pfam05192 1116231006358 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1116231006359 Walker A/P-loop; other site 1116231006360 ATP binding site [chemical binding]; other site 1116231006361 Q-loop/lid; other site 1116231006362 ABC transporter signature motif; other site 1116231006363 Walker B; other site 1116231006364 D-loop; other site 1116231006365 H-loop/switch region; other site 1116231006366 Protein of unknown function (DUF964); Region: DUF964; cl01483 1116231006367 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1116231006368 arginine repressor; Region: argR_whole; TIGR01529 1116231006369 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1116231006370 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1116231006371 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1116231006372 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1116231006373 active site 1116231006374 HIGH motif; other site 1116231006375 KMSK motif region; other site 1116231006376 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1116231006377 tRNA binding surface [nucleotide binding]; other site 1116231006378 anticodon binding site; other site 1116231006379 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1116231006381 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1116231006382 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1116231006383 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1116231006384 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1116231006385 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1116231006386 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1116231006387 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1116231006388 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1116231006389 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1116231006390 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 1116231006391 dimer interface [polypeptide binding]; other site 1116231006392 anticodon binding site; other site 1116231006393 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 1116231006394 homodimer interface [polypeptide binding]; other site 1116231006395 motif 1; other site 1116231006396 active site 1116231006397 motif 2; other site 1116231006398 GAD domain; Region: GAD; pfam02938 1116231006399 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 1116231006400 motif 3; other site 1116231006401 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1116231006402 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 1116231006403 dimer interface [polypeptide binding]; other site 1116231006404 motif 1; other site 1116231006405 active site 1116231006406 motif 2; other site 1116231006407 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 1116231006408 anticodon binding site; other site 1116231006409 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1116231006410 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1116231006411 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1116231006412 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1116231006413 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1116231006415 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 1116231006416 Small integral membrane protein [Function unknown]; Region: COG5547 1116231006417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1116231006418 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1116231006419 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1116231006420 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1116231006421 Coenzyme A binding pocket [chemical binding]; other site 1116231006422 potential frameshift: common BLAST hit: gi|325979471|ref|YP_004289187.1| MarR family transcriptional regulator 1116231006423 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1116231006424 MarR family; Region: MarR_2; pfam12802 1116231006425 Predicted transcriptional regulators [Transcription]; Region: COG1695 1116231006426 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1116231006429 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1116231006430 Predicted membrane protein [Function unknown]; Region: COG1511 1116231006431 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1116231006432 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1116231006433 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1116231006434 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1116231006435 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1116231006436 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1116231006437 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 1116231006438 RNA binding surface [nucleotide binding]; other site 1116231006439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 1116231006440 replicative DNA helicase; Provisional; Region: PRK05748 1116231006441 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1116231006442 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 1116231006443 Walker A motif; other site 1116231006444 ATP binding site [chemical binding]; other site 1116231006445 Walker B motif; other site 1116231006446 DNA binding loops [nucleotide binding] 1116231006447 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1116231006448 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1116231006449 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1116231006450 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1116231006451 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1116231006452 DHH family; Region: DHH; pfam01368 1116231006453 DHHA1 domain; Region: DHHA1; pfam02272 1116231006454 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1116231006455 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1116231006456 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1116231006457 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1116231006458 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 1116231006459 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1116231006460 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1116231006461 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1116231006462 putative L-serine binding site [chemical binding]; other site 1116231006463 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1116231006464 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1116231006465 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1116231006466 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 1116231006467 motif II; other site 1116231006468 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 1116231006469 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1116231006470 catalytic residue [active] 1116231006471 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1116231006472 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1116231006473 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 1116231006474 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1116231006475 Walker A/P-loop; other site 1116231006476 ATP binding site [chemical binding]; other site 1116231006477 Q-loop/lid; other site 1116231006478 ABC transporter signature motif; other site 1116231006479 Walker B; other site 1116231006480 D-loop; other site 1116231006481 H-loop/switch region; other site 1116231006482 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 1116231006483 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1116231006484 Walker A/P-loop; other site 1116231006485 ATP binding site [chemical binding]; other site 1116231006486 Q-loop/lid; other site 1116231006487 ABC transporter signature motif; other site 1116231006488 Walker B; other site 1116231006489 D-loop; other site 1116231006490 H-loop/switch region; other site 1116231006491 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1116231006492 Helix-turn-helix domain; Region: HTH_25; pfam13413 1116231006493 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1116231006494 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1116231006495 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1116231006496 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1116231006497 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1116231006498 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 1116231006499 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 1116231006500 DNA-binding site [nucleotide binding]; DNA binding site 1116231006501 RNA-binding motif; other site 1116231006504 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1116231006505 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1116231006506 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1116231006507 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1116231006510 S4 domain; Region: S4_2; cl17325 1116231006511 recombination protein F; Reviewed; Region: recF; PRK00064 1116231006512 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1116231006513 Walker A/P-loop; other site 1116231006514 ATP binding site [chemical binding]; other site 1116231006515 Q-loop/lid; other site 1116231006516 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1116231006517 ABC transporter signature motif; other site 1116231006518 Walker B; other site 1116231006519 D-loop; other site 1116231006520 H-loop/switch region; other site 1116231006521 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 1116231006522 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1116231006523 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 1116231006524 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 1116231006525 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 1116231006526 active site 1116231006527 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1116231006528 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1116231006529 active site 1116231006530 HIGH motif; other site 1116231006531 dimer interface [polypeptide binding]; other site 1116231006532 KMSKS motif; other site 1116231006533 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1116231006534 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1116231006535 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1116231006536 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1116231006537 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1116231006538 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1116231006539 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1116231006540 ABC transporter; Region: ABC_tran_2; pfam12848 1116231006541 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1116231006542 Predicted membrane protein [Function unknown]; Region: COG4485 1116231006543 potential frameshift: common BLAST hit: gi|76787467|ref|YP_328857.1| ISSag3, transposase 1116231006544 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1116231006545 Integrase core domain; Region: rve; pfam00665 1116231006546 Integrase core domain; Region: rve; pfam00665 1116231006547 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1116231006548 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1116231006549 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1116231006550 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 1116231006551 protein binding site [polypeptide binding]; other site 1116231006552 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1116231006553 ParB-like nuclease domain; Region: ParBc; pfam02195 1116231006554 Protein involved in initiation of plasmid replication [DNA replication, recombination, and repair]; Region: COG5527 1116231006555 Initiator Replication protein; Region: Rep_3; pfam01051 1116231006556 Lactococcus lactis RepB C-terminus; Region: L_lactis_RepB_C; pfam06430 1116231006557 HTH domain; Region: HTH_11; cl17392 1116231006558 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1116231006559 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1116231006560 Integral membrane protein DUF95; Region: DUF95; pfam01944 1116231006561 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 1116231006562 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1116231006563 active site 1116231006564 DNA binding site [nucleotide binding] 1116231006565 Int/Topo IB signature motif; other site 1116231006566 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1116231006567 Integrase core domain; Region: rve; pfam00665 1116231006568 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 1116231006569 Ligand Binding Site [chemical binding]; other site 1116231006570 manganese transport protein MntH; Reviewed; Region: PRK00701 1116231006571 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1116231006572 Integrase core domain; Region: rve; pfam00665 1116231006573 putative transposase OrfB; Reviewed; Region: PHA02517 1116231006574 Transposase; Region: HTH_Tnp_1; pfam01527 1116231006575 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1116231006576 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 1116231006577 active site 1116231006578 DNA binding site [nucleotide binding] 1116231006579 Int/Topo IB signature motif; other site 1116231006580 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1116231006581 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1116231006582 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1116231006583 Fic/DOC family; Region: Fic; cl00960