-- dump date 20140619_093612 -- class Genbank::misc_feature -- table misc_feature_note -- id note 334413000001 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 334413000002 Initiator Replication protein; Region: Rep_3; pfam01051 334413000003 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334413000004 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334413000005 Probable transposase; Region: OrfB_IS605; pfam01385 334413000006 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334413000007 Transposase IS200 like; Region: Y1_Tnp; pfam01797 334413000008 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 334413000009 MPN+ (JAMM) motif; other site 334413000010 Zinc-binding site [ion binding]; other site 334413000011 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 334413000012 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 334413000013 dimer interface [polypeptide binding]; other site 334413000014 ssDNA binding site [nucleotide binding]; other site 334413000015 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334413000016 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 334413000017 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 334413000018 Rubber elongation factor protein (REF); Region: REF; pfam05755 334413000019 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 334413000020 MPN+ (JAMM) motif; other site 334413000021 Zinc-binding site [ion binding]; other site 334413000022 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334413000023 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334413000024 Probable transposase; Region: OrfB_IS605; pfam01385 334413000025 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334413000026 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 334413000027 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 334413000028 dimer interface [polypeptide binding]; other site 334413000029 ssDNA binding site [nucleotide binding]; other site 334413000030 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334413000031 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 334413000032 Probable transposase; Region: OrfB_IS605; pfam01385 334413000033 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334413000034 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 334413000035 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 334413000036 CAAX protease self-immunity; Region: Abi; pfam02517 334413000037 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000038 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000039 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000040 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 334413000041 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 334413000042 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 334413000043 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cl08497 334413000044 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 334413000045 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 334413000046 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 334413000047 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 334413000048 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 334413000049 active site 334413000050 catalytic site [active] 334413000051 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 334413000052 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 334413000053 dimer interface [polypeptide binding]; other site 334413000054 ssDNA binding site [nucleotide binding]; other site 334413000055 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334413000056 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 334413000057 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 334413000058 cofactor binding site; other site 334413000059 DNA binding site [nucleotide binding] 334413000060 substrate interaction site [chemical binding]; other site 334413000061 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 334413000062 trimer interface [polypeptide binding]; other site 334413000063 active site 334413000064 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 334413000065 Transposase IS200 like; Region: Y1_Tnp; pfam01797 334413000066 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 334413000067 metal binding site [ion binding]; metal-binding site 334413000068 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 334413000069 non-specific DNA binding site [nucleotide binding]; other site 334413000070 salt bridge; other site 334413000071 sequence-specific DNA binding site [nucleotide binding]; other site 334413000072 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 334413000073 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 334413000074 P-loop; other site 334413000075 Magnesium ion binding site [ion binding]; other site 334413000076 transport-energizing ATPase, TRC40/GET3/ArsA family; Region: GET3_arsA_TRC40; TIGR00345 334413000077 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 334413000078 Magnesium ion binding site [ion binding]; other site 334413000079 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 334413000080 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 334413000081 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334413000082 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 334413000083 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 334413000084 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 334413000085 active site 334413000086 DNA binding site [nucleotide binding] 334413000087 Int/Topo IB signature motif; other site 334413000088 Transposase IS200 like; Region: Y1_Tnp; pfam01797 334413000089 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334413000090 Probable transposase; Region: OrfB_IS605; pfam01385 334413000091 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334413000092 Repair protein; Region: Repair_PSII; pfam04536 334413000093 Toprim-like; Region: Toprim_2; pfam13155 334413000094 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 334413000095 putative active site [active] 334413000096 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 334413000097 G5 domain; Region: G5; pfam07501 334413000098 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 334413000099 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 334413000100 active site 334413000101 catalytic site [active] 334413000102 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 334413000103 active site 334413000104 catalytic site [active] 334413000105 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 334413000106 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 334413000107 active site 334413000108 catalytic site [active] 334413000109 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000110 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 334413000111 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000112 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 334413000113 domain interaction interfaces [polypeptide binding]; other site 334413000114 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 334413000115 domain interaction interfaces [polypeptide binding]; other site 334413000116 T surface-antigen of pili; Region: FctA; pfam12892 334413000117 T surface-antigen of pili; Region: FctA; pfam12892 334413000118 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 334413000119 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 334413000120 T surface-antigen of pili; Region: FctA; pfam12892 334413000121 T surface-antigen of pili; Region: FctA; pfam12892 334413000122 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 334413000123 Staphylococcal nuclease homologues; Region: SNc; smart00318 334413000124 Catalytic site; other site 334413000125 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 334413000126 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 334413000127 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 334413000128 Catalytic site [active] 334413000129 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334413000130 Probable transposase; Region: OrfB_IS605; pfam01385 334413000131 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334413000132 stage V sporulation protein K; Region: spore_V_K; TIGR02881 334413000133 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 334413000134 Walker A motif; other site 334413000135 ATP binding site [chemical binding]; other site 334413000136 Walker B motif; other site 334413000137 arginine finger; other site 334413000138 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 334413000139 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334413000140 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334413000141 Probable transposase; Region: OrfB_IS605; pfam01385 334413000142 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 334413000143 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 334413000144 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 334413000145 cofactor binding site; other site 334413000146 DNA binding site [nucleotide binding] 334413000147 substrate interaction site [chemical binding]; other site 334413000148 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 334413000149 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000150 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000151 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000152 G5 domain; Region: G5; pfam07501 334413000153 G5 domain; Region: G5; pfam07501 334413000154 G5 domain; Region: G5; pfam07501 334413000155 G5 domain; Region: G5; pfam07501 334413000156 G5 domain; Region: G5; pfam07501 334413000157 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 334413000158 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000159 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000160 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000161 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000162 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000163 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000164 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000165 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 334413000166 active site 334413000167 catalytic site [active] 334413000168 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000169 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000170 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 334413000171 active site 334413000172 catalytic site [active] 334413000173 Dynein heavy chain, N-terminal region 1; Region: DHC_N1; pfam08385 334413000174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 334413000175 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 334413000176 Probable transposase; Region: OrfB_IS605; pfam01385 334413000177 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 334413000178 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 334413000179 putative transposase OrfB; Reviewed; Region: PHA02517 334413000180 HTH-like domain; Region: HTH_21; pfam13276 334413000181 Integrase core domain; Region: rve; pfam00665 334413000182 Integrase core domain; Region: rve_2; pfam13333 334413000183 Helix-turn-helix domain; Region: HTH_28; pfam13518 334413000184 Nuclease-related domain; Region: NERD; pfam08378 334413000185 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 334413000186 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000187 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000188 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000189 Staphylococcal nuclease homologues; Region: SNc; smart00318 334413000190 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 334413000191 Catalytic site; other site 334413000192 Restriction endonuclease; Region: Mrr_cat; pfam04471 334413000193 DNA topoisomerase III; Provisional; Region: PRK07726 334413000194 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 334413000195 active site 334413000196 putative interdomain interaction site [polypeptide binding]; other site 334413000197 putative metal-binding site [ion binding]; other site 334413000198 putative nucleotide binding site [chemical binding]; other site 334413000199 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; cl11986 334413000200 domain I; other site 334413000201 DNA binding groove [nucleotide binding] 334413000202 phosphate binding site [ion binding]; other site 334413000203 domain II; other site 334413000204 domain III; other site 334413000205 nucleotide binding site [chemical binding]; other site 334413000206 catalytic site [active] 334413000207 domain IV; other site 334413000208 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 334413000209 RRXRR protein; Region: RRXRR; pfam14239 334413000210 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 334413000211 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 334413000212 active site 334413000213 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 334413000214 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 334413000215 Nuclease-related domain; Region: NERD; pfam08378 334413000216 3D domain; Region: 3D; cl01439 334413000217 Surface antigen [General function prediction only]; Region: COG3942 334413000218 CHAP domain; Region: CHAP; pfam05257 334413000219 AAA-like domain; Region: AAA_10; pfam12846 334413000220 PrgI family protein; Region: PrgI; pfam12666 334413000221 DnaA N-terminal domain; Region: DnaA_N; pfam11638 334413000222 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 334413000223 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 334413000224 Walker A motif; other site 334413000225 ATP binding site [chemical binding]; other site 334413000226 Walker B motif; other site 334413000227 arginine finger; other site 334413000228 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 334413000229 DnaA box-binding interface [nucleotide binding]; other site 334413000230 DNA polymerase III subunit beta; Validated; Region: PRK05643 334413000231 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 334413000232 putative DNA binding surface [nucleotide binding]; other site 334413000233 dimer interface [polypeptide binding]; other site 334413000234 beta-clamp/clamp loader binding surface; other site 334413000235 beta-clamp/translesion DNA polymerase binding surface; other site 334413000236 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 334413000237 RNA binding surface [nucleotide binding]; other site 334413000238 recombination protein F; Reviewed; Region: recF; PRK00064 334413000239 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413000240 Walker A/P-loop; other site 334413000241 ATP binding site [chemical binding]; other site 334413000242 Q-loop/lid; other site 334413000243 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413000244 ABC transporter signature motif; other site 334413000245 Walker B; other site 334413000246 D-loop; other site 334413000247 H-loop/switch region; other site 334413000248 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 334413000249 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 334413000250 ATP binding site [chemical binding]; other site 334413000251 Mg2+ binding site [ion binding]; other site 334413000252 G-X-G motif; other site 334413000253 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 334413000254 anchoring element; other site 334413000255 dimer interface [polypeptide binding]; other site 334413000256 ATP binding site [chemical binding]; other site 334413000257 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 334413000258 active site 334413000259 putative metal-binding site [ion binding]; other site 334413000260 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 334413000261 DNA gyrase subunit A; Validated; Region: PRK05560 334413000262 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 334413000263 CAP-like domain; other site 334413000264 active site 334413000265 primary dimer interface [polypeptide binding]; other site 334413000266 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334413000267 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334413000268 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334413000269 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334413000270 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 334413000271 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 334413000272 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 334413000273 anti sigma factor interaction site; other site 334413000274 regulatory phosphorylation site [posttranslational modification]; other site 334413000275 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 334413000276 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 334413000277 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 334413000278 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334413000279 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 334413000280 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 334413000281 DNA binding residues [nucleotide binding] 334413000282 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334413000283 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 334413000284 Walker A/P-loop; other site 334413000285 ATP binding site [chemical binding]; other site 334413000286 Q-loop/lid; other site 334413000287 ABC transporter signature motif; other site 334413000288 Walker B; other site 334413000289 D-loop; other site 334413000290 H-loop/switch region; other site 334413000291 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 334413000292 fumarate hydratase; Reviewed; Region: fumC; PRK00485 334413000293 Class II fumarases; Region: Fumarase_classII; cd01362 334413000294 active site 334413000295 tetramer interface [polypeptide binding]; other site 334413000296 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334413000297 Coenzyme A binding pocket [chemical binding]; other site 334413000298 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 334413000299 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 334413000300 YcfA-like protein; Region: YcfA; pfam07927 334413000301 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 334413000302 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 334413000303 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 334413000304 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 334413000305 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 334413000306 intersubunit interface [polypeptide binding]; other site 334413000307 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334413000308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413000309 Walker A/P-loop; other site 334413000310 ATP binding site [chemical binding]; other site 334413000311 Q-loop/lid; other site 334413000312 ABC transporter signature motif; other site 334413000313 Walker B; other site 334413000314 D-loop; other site 334413000315 H-loop/switch region; other site 334413000316 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 334413000317 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 334413000318 ABC-ATPase subunit interface; other site 334413000319 dimer interface [polypeptide binding]; other site 334413000320 putative PBP binding regions; other site 334413000321 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 334413000322 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 334413000323 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 334413000324 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 334413000325 active site residue [active] 334413000326 potassium/proton antiporter; Reviewed; Region: PRK05326 334413000327 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 334413000328 TrkA-C domain; Region: TrkA_C; pfam02080 334413000329 TrkA-C domain; Region: TrkA_C; pfam02080 334413000330 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 334413000331 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 334413000332 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 334413000333 active site 334413000334 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 334413000335 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 334413000336 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 334413000337 putative active site [active] 334413000338 catalytic triad [active] 334413000339 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 334413000340 PA/protease domain interface [polypeptide binding]; other site 334413000341 putative integrin binding motif; other site 334413000342 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 334413000343 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 334413000344 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 334413000345 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 334413000346 dimer interface [polypeptide binding]; other site 334413000347 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000348 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 334413000349 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000350 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000351 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334413000352 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 334413000353 Leucine rich repeat; Region: LRR_8; pfam13855 334413000354 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334413000355 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334413000356 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334413000357 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000358 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 334413000359 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000360 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000361 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 334413000362 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 334413000363 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 334413000364 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 334413000365 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 334413000366 motif II; other site 334413000367 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 334413000368 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 334413000369 oligoendopeptidase F; Region: pepF; TIGR00181 334413000370 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 334413000371 active site 334413000372 Zn binding site [ion binding]; other site 334413000373 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334413000374 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334413000375 Walker A/P-loop; other site 334413000376 ATP binding site [chemical binding]; other site 334413000377 Q-loop/lid; other site 334413000378 ABC transporter signature motif; other site 334413000379 Walker B; other site 334413000380 D-loop; other site 334413000381 H-loop/switch region; other site 334413000382 H+ Antiporter protein; Region: 2A0121; TIGR00900 334413000383 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 334413000384 putative substrate translocation pore; other site 334413000385 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 334413000386 non-heme iron binding site [ion binding]; other site 334413000387 Helix-turn-helix domain; Region: HTH_17; pfam12728 334413000388 Fic family protein [Function unknown]; Region: COG3177 334413000389 Fic/DOC family; Region: Fic; pfam02661 334413000390 Rib/alpha-like repeat; Region: Rib; cl07159 334413000391 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000392 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000393 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000394 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 334413000395 Radical SAM superfamily; Region: Radical_SAM; pfam04055 334413000396 FeS/SAM binding site; other site 334413000397 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 334413000398 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 334413000399 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 334413000400 dimerization interface [polypeptide binding]; other site 334413000401 putative DNA binding site [nucleotide binding]; other site 334413000402 putative Zn2+ binding site [ion binding]; other site 334413000403 Heavy-metal-associated domain; Region: HMA; pfam00403 334413000404 metal-binding site [ion binding] 334413000405 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 334413000406 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334413000407 Soluble P-type ATPase [General function prediction only]; Region: COG4087 334413000408 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 334413000409 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 334413000410 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 334413000411 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 334413000412 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 334413000413 CRISPR/Cas system-associated protein Csn2; Region: Csn2_like; cl09913 334413000414 CRISPR type II-A/NMEMI-associated protein Csn2; Region: cas_Csn2; TIGR01866 334413000415 tetramer interface [polypeptide binding]; other site 334413000416 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 334413000417 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 334413000418 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 334413000419 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 334413000420 FeS/SAM binding site; other site 334413000421 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 334413000422 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 334413000423 ThiS interaction site; other site 334413000424 putative active site [active] 334413000425 tetramer interface [polypeptide binding]; other site 334413000426 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 334413000427 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; cl17196 334413000428 ATP binding site [chemical binding]; other site 334413000429 substrate interface [chemical binding]; other site 334413000430 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 334413000431 thiS-thiF/thiG interaction site; other site 334413000432 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 334413000433 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 334413000434 C-terminal domain interface [polypeptide binding]; other site 334413000435 GSH binding site (G-site) [chemical binding]; other site 334413000436 dimer interface [polypeptide binding]; other site 334413000437 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 334413000438 dimer interface [polypeptide binding]; other site 334413000439 substrate binding pocket (H-site) [chemical binding]; other site 334413000440 N-terminal domain interface [polypeptide binding]; other site 334413000441 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 334413000442 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 334413000443 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 334413000444 Walker A motif; other site 334413000445 ATP binding site [chemical binding]; other site 334413000446 Walker B motif; other site 334413000447 arginine finger; other site 334413000448 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 334413000449 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334413000450 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334413000451 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 334413000452 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 334413000453 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 334413000454 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 334413000455 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334413000456 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 334413000457 HsdM N-terminal domain; Region: HsdM_N; pfam12161 334413000458 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 334413000459 Methyltransferase domain; Region: Methyltransf_26; pfam13659 334413000460 Virulence protein [General function prediction only]; Region: COG3943 334413000461 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 334413000462 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 334413000463 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 334413000464 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 334413000465 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 334413000466 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 334413000467 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 334413000468 ATP binding site [chemical binding]; other site 334413000469 putative Mg++ binding site [ion binding]; other site 334413000470 Protein of unknown function DUF45; Region: DUF45; pfam01863 334413000471 elongation factor Tu; Reviewed; Region: PRK00049 334413000472 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 334413000473 G1 box; other site 334413000474 GEF interaction site [polypeptide binding]; other site 334413000475 GTP/Mg2+ binding site [chemical binding]; other site 334413000476 Switch I region; other site 334413000477 G2 box; other site 334413000478 G3 box; other site 334413000479 Switch II region; other site 334413000480 G4 box; other site 334413000481 G5 box; other site 334413000482 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 334413000483 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 334413000484 Antibiotic Binding Site [chemical binding]; other site 334413000485 ATP cone domain; Region: ATP-cone; pfam03477 334413000486 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000487 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000488 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000489 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000490 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000491 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000492 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 334413000493 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 334413000494 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 334413000495 DHH family; Region: DHH; pfam01368 334413000496 DHHA1 domain; Region: DHHA1; pfam02272 334413000497 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 334413000498 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 334413000499 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 334413000500 replicative DNA helicase; Region: DnaB; TIGR00665 334413000501 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 334413000502 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 334413000503 Walker A motif; other site 334413000504 ATP binding site [chemical binding]; other site 334413000505 Walker B motif; other site 334413000506 DNA binding loops [nucleotide binding] 334413000507 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334413000508 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334413000509 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 334413000510 DNA replication protein DnaC; Validated; Region: PRK06835 334413000511 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 334413000512 Walker A motif; other site 334413000513 ATP binding site [chemical binding]; other site 334413000514 Walker B motif; other site 334413000515 arginine finger; other site 334413000516 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 334413000517 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 334413000518 TIGR01210 family protein; Region: TIGR01210 334413000519 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334413000520 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 334413000521 seryl-tRNA synthetase; Provisional; Region: PRK05431 334413000522 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 334413000523 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 334413000524 dimer interface [polypeptide binding]; other site 334413000525 active site 334413000526 motif 1; other site 334413000527 motif 2; other site 334413000528 motif 3; other site 334413000529 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 334413000530 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334413000531 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 334413000532 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 334413000533 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 334413000534 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 334413000535 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 334413000536 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 334413000537 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 334413000538 FeS/SAM binding site; other site 334413000539 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 334413000540 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 334413000541 Isochorismatase family; Region: Isochorismatase; pfam00857 334413000542 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 334413000543 catalytic triad [active] 334413000544 dimer interface [polypeptide binding]; other site 334413000545 conserved cis-peptide bond; other site 334413000546 Nucleoside recognition; Region: Gate; pfam07670 334413000547 TraX protein; Region: TraX; pfam05857 334413000548 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 334413000549 Peptidase C26; Region: Peptidase_C26; pfam07722 334413000550 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 334413000551 catalytic triad [active] 334413000552 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 334413000553 EamA-like transporter family; Region: EamA; pfam00892 334413000554 EamA-like transporter family; Region: EamA; pfam00892 334413000555 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 334413000556 methionine sulfoxide reductase B; Provisional; Region: PRK00222 334413000557 SelR domain; Region: SelR; pfam01641 334413000558 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 334413000559 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 334413000560 FeS/SAM binding site; other site 334413000561 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 334413000562 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334413000563 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 334413000564 PBP superfamily domain; Region: PBP_like_2; cl17296 334413000565 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 334413000566 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 334413000567 dimer interface [polypeptide binding]; other site 334413000568 conserved gate region; other site 334413000569 putative PBP binding loops; other site 334413000570 ABC-ATPase subunit interface; other site 334413000571 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 334413000572 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 334413000573 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 334413000574 Walker A/P-loop; other site 334413000575 ATP binding site [chemical binding]; other site 334413000576 Q-loop/lid; other site 334413000577 ABC transporter signature motif; other site 334413000578 Walker B; other site 334413000579 D-loop; other site 334413000580 H-loop/switch region; other site 334413000581 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334413000582 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 334413000583 active site 334413000584 phosphorylation site [posttranslational modification] 334413000585 intermolecular recognition site; other site 334413000586 dimerization interface [polypeptide binding]; other site 334413000587 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 334413000588 DNA binding site [nucleotide binding] 334413000589 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334413000590 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 334413000591 dimer interface [polypeptide binding]; other site 334413000592 phosphorylation site [posttranslational modification] 334413000593 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 334413000594 ATP binding site [chemical binding]; other site 334413000595 Mg2+ binding site [ion binding]; other site 334413000596 G-X-G motif; other site 334413000597 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 334413000598 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334413000599 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 334413000600 Walker A/P-loop; other site 334413000601 ATP binding site [chemical binding]; other site 334413000602 Q-loop/lid; other site 334413000603 ABC transporter signature motif; other site 334413000604 Walker B; other site 334413000605 D-loop; other site 334413000606 H-loop/switch region; other site 334413000607 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334413000608 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 334413000609 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 334413000610 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 334413000611 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 334413000612 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 334413000613 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 334413000614 active site 334413000615 homodimer interface [polypeptide binding]; other site 334413000616 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 334413000617 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 334413000618 putative oligomer interface [polypeptide binding]; other site 334413000619 putative active site [active] 334413000620 metal binding site [ion binding]; metal-binding site 334413000621 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334413000622 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 334413000623 dimer interface [polypeptide binding]; other site 334413000624 phosphorylation site [posttranslational modification] 334413000625 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 334413000626 ATP binding site [chemical binding]; other site 334413000627 Mg2+ binding site [ion binding]; other site 334413000628 G-X-G motif; other site 334413000629 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334413000630 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 334413000631 active site 334413000632 phosphorylation site [posttranslational modification] 334413000633 intermolecular recognition site; other site 334413000634 dimerization interface [polypeptide binding]; other site 334413000635 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 334413000636 DNA binding site [nucleotide binding] 334413000637 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334413000638 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413000639 Walker A/P-loop; other site 334413000640 ATP binding site [chemical binding]; other site 334413000641 Q-loop/lid; other site 334413000642 ABC transporter signature motif; other site 334413000643 Walker B; other site 334413000644 D-loop; other site 334413000645 H-loop/switch region; other site 334413000646 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 334413000647 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 334413000648 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 334413000649 GDP-binding site [chemical binding]; other site 334413000650 ACT binding site; other site 334413000651 IMP binding site; other site 334413000652 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 334413000653 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 334413000654 Walker A/P-loop; other site 334413000655 ATP binding site [chemical binding]; other site 334413000656 Q-loop/lid; other site 334413000657 ABC transporter signature motif; other site 334413000658 Walker B; other site 334413000659 D-loop; other site 334413000660 H-loop/switch region; other site 334413000661 TOBE domain; Region: TOBE; pfam03459 334413000662 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 334413000663 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 334413000664 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 334413000665 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 334413000666 dimer interface [polypeptide binding]; other site 334413000667 conserved gate region; other site 334413000668 putative PBP binding loops; other site 334413000669 ABC-ATPase subunit interface; other site 334413000670 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 334413000671 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 334413000672 dimer interface [polypeptide binding]; other site 334413000673 conserved gate region; other site 334413000674 putative PBP binding loops; other site 334413000675 ABC-ATPase subunit interface; other site 334413000676 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334413000677 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334413000678 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 334413000679 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 334413000680 prolyl-tRNA synthetase; Provisional; Region: PRK09194 334413000681 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 334413000682 dimer interface [polypeptide binding]; other site 334413000683 motif 1; other site 334413000684 active site 334413000685 motif 2; other site 334413000686 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 334413000687 putative deacylase active site [active] 334413000688 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 334413000689 active site 334413000690 motif 3; other site 334413000691 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 334413000692 anticodon binding site; other site 334413000693 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334413000694 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 334413000695 non-specific DNA binding site [nucleotide binding]; other site 334413000696 salt bridge; other site 334413000697 sequence-specific DNA binding site [nucleotide binding]; other site 334413000698 Fic family protein [Function unknown]; Region: COG3177 334413000699 Fic/DOC family; Region: Fic; pfam02661 334413000700 Methyltransferase domain; Region: Methyltransf_31; pfam13847 334413000701 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 334413000702 S-adenosylmethionine binding site [chemical binding]; other site 334413000703 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 334413000704 amphipathic channel; other site 334413000705 Asn-Pro-Ala signature motifs; other site 334413000706 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334413000707 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334413000708 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334413000709 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334413000710 Coenzyme A binding pocket [chemical binding]; other site 334413000711 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 334413000712 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 334413000713 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 334413000714 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 334413000715 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 334413000716 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 334413000717 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 334413000718 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 334413000719 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 334413000720 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 334413000721 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 334413000722 putative translocon binding site; other site 334413000723 protein-rRNA interface [nucleotide binding]; other site 334413000724 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 334413000725 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 334413000726 G-X-X-G motif; other site 334413000727 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 334413000728 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 334413000729 23S rRNA interface [nucleotide binding]; other site 334413000730 5S rRNA interface [nucleotide binding]; other site 334413000731 putative antibiotic binding site [chemical binding]; other site 334413000732 L25 interface [polypeptide binding]; other site 334413000733 L27 interface [polypeptide binding]; other site 334413000734 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 334413000735 23S rRNA interface [nucleotide binding]; other site 334413000736 putative translocon interaction site; other site 334413000737 signal recognition particle (SRP54) interaction site; other site 334413000738 L23 interface [polypeptide binding]; other site 334413000739 trigger factor interaction site; other site 334413000740 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 334413000741 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 334413000742 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 334413000743 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 334413000744 RNA binding site [nucleotide binding]; other site 334413000745 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 334413000746 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 334413000747 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 334413000748 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 334413000749 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 334413000750 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 334413000751 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 334413000752 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 334413000753 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 334413000754 23S rRNA interface [nucleotide binding]; other site 334413000755 L21e interface [polypeptide binding]; other site 334413000756 5S rRNA interface [nucleotide binding]; other site 334413000757 L27 interface [polypeptide binding]; other site 334413000758 L5 interface [polypeptide binding]; other site 334413000759 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 334413000760 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 334413000761 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 334413000762 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 334413000763 23S rRNA binding site [nucleotide binding]; other site 334413000764 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 334413000765 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 334413000766 SecY translocase; Region: SecY; pfam00344 334413000767 adenylate kinase; Reviewed; Region: adk; PRK00279 334413000768 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 334413000769 AMP-binding site [chemical binding]; other site 334413000770 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 334413000771 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 334413000772 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 334413000773 rRNA binding site [nucleotide binding]; other site 334413000774 predicted 30S ribosome binding site; other site 334413000775 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 334413000776 30S ribosomal protein S13; Region: bact_S13; TIGR03631 334413000777 30S ribosomal protein S11; Validated; Region: PRK05309 334413000778 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 334413000779 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 334413000780 alphaNTD - beta interaction site [polypeptide binding]; other site 334413000781 alphaNTD homodimer interface [polypeptide binding]; other site 334413000782 alphaNTD - beta' interaction site [polypeptide binding]; other site 334413000783 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 334413000784 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 334413000785 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000786 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 334413000787 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000788 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413000789 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 334413000790 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 334413000791 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 334413000792 RNA binding surface [nucleotide binding]; other site 334413000793 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 334413000794 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000795 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000796 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000797 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000798 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000799 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000800 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000801 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000802 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 334413000803 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000804 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 334413000805 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000806 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000807 Cna protein B-type domain; Region: Cna_B; pfam05738 334413000808 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 334413000809 active site 334413000810 catalytic site [active] 334413000811 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 334413000812 active site 334413000813 catalytic site [active] 334413000814 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 334413000815 active site 334413000816 catalytic site [active] 334413000817 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334413000818 Predicted amidohydrolase [General function prediction only]; Region: COG0388 334413000819 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 334413000820 active site 334413000821 catalytic triad [active] 334413000822 Fic/DOC family; Region: Fic; pfam02661 334413000823 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 334413000824 putative active site [active] 334413000825 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 334413000826 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 334413000827 active site 334413000828 nucleophile elbow; other site 334413000829 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413000830 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413000831 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413000832 Walker A/P-loop; other site 334413000833 ATP binding site [chemical binding]; other site 334413000834 Q-loop/lid; other site 334413000835 ABC transporter signature motif; other site 334413000836 Walker B; other site 334413000837 D-loop; other site 334413000838 H-loop/switch region; other site 334413000839 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413000840 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413000841 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 334413000842 Walker A/P-loop; other site 334413000843 ATP binding site [chemical binding]; other site 334413000844 Q-loop/lid; other site 334413000845 ABC transporter signature motif; other site 334413000846 Walker B; other site 334413000847 D-loop; other site 334413000848 H-loop/switch region; other site 334413000849 4-alpha-glucanotransferase; Provisional; Region: PRK14508 334413000850 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 334413000851 dimer interface [polypeptide binding]; other site 334413000852 substrate binding site [chemical binding]; other site 334413000853 ATP binding site [chemical binding]; other site 334413000854 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 334413000855 thiamine phosphate binding site [chemical binding]; other site 334413000856 active site 334413000857 pyrophosphate binding site [ion binding]; other site 334413000858 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334413000859 MarR family; Region: MarR_2; cl17246 334413000860 Pirin-related protein [General function prediction only]; Region: COG1741 334413000861 Pirin; Region: Pirin; pfam02678 334413000862 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 334413000863 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 334413000864 FMN binding site [chemical binding]; other site 334413000865 dimer interface [polypeptide binding]; other site 334413000866 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 334413000867 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 334413000868 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 334413000869 putative active site [active] 334413000870 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 334413000871 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 334413000872 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 334413000873 catalytic triad [active] 334413000874 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 334413000875 Predicted integral membrane protein [Function unknown]; Region: COG5505 334413000876 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 334413000877 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 334413000878 metal binding site [ion binding]; metal-binding site 334413000879 dimer interface [polypeptide binding]; other site 334413000880 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 334413000881 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 334413000882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334413000883 homodimer interface [polypeptide binding]; other site 334413000884 catalytic residue [active] 334413000885 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 334413000886 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 334413000887 acyl-activating enzyme (AAE) consensus motif; other site 334413000888 AMP binding site [chemical binding]; other site 334413000889 active site 334413000890 CoA binding site [chemical binding]; other site 334413000891 2-ketoisovalerate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11864 334413000892 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 334413000893 TPP-binding site [chemical binding]; other site 334413000894 putative dimer interface [polypeptide binding]; other site 334413000895 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 334413000896 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 334413000897 dimer interface [polypeptide binding]; other site 334413000898 PYR/PP interface [polypeptide binding]; other site 334413000899 TPP binding site [chemical binding]; other site 334413000900 substrate binding site [chemical binding]; other site 334413000901 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 334413000902 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 334413000903 DNA polymerase IV; Reviewed; Region: PRK03103 334413000904 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 334413000905 active site 334413000906 DNA binding site [nucleotide binding] 334413000907 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 334413000908 Domain of unknown function (DUF955); Region: DUF955; cl01076 334413000909 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334413000910 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 334413000911 non-specific DNA binding site [nucleotide binding]; other site 334413000912 salt bridge; other site 334413000913 sequence-specific DNA binding site [nucleotide binding]; other site 334413000914 YodA lipocalin-like domain; Region: YodA; cl01365 334413000915 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 334413000916 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 334413000917 intersubunit interface [polypeptide binding]; other site 334413000918 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 334413000919 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 334413000920 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334413000921 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 334413000922 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 334413000923 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 334413000924 ABC-ATPase subunit interface; other site 334413000925 dimer interface [polypeptide binding]; other site 334413000926 putative PBP binding regions; other site 334413000927 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 334413000928 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 334413000929 Rib/alpha-like repeat; Region: Rib; pfam08428 334413000930 Rib/alpha-like repeat; Region: Rib; cl07159 334413000931 Rib/alpha-like repeat; Region: Rib; pfam08428 334413000932 Rib/alpha-like repeat; Region: Rib; pfam08428 334413000933 Rib/alpha-like repeat; Region: Rib; cl07159 334413000934 Rib/alpha-like repeat; Region: Rib; pfam08428 334413000935 Rib/alpha-like repeat; Region: Rib; cl07159 334413000936 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 334413000937 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 334413000938 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 334413000939 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 334413000940 B12 binding site [chemical binding]; other site 334413000941 cobalt ligand [ion binding]; other site 334413000942 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 334413000943 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 334413000944 catalytic loop [active] 334413000945 iron binding site [ion binding]; other site 334413000946 Uncharacterized conserved protein [Function unknown]; Region: COG0398 334413000947 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 334413000948 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 334413000949 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334413000950 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413000951 Walker A/P-loop; other site 334413000952 ATP binding site [chemical binding]; other site 334413000953 Q-loop/lid; other site 334413000954 ABC transporter signature motif; other site 334413000955 Walker B; other site 334413000956 D-loop; other site 334413000957 H-loop/switch region; other site 334413000958 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 334413000959 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 334413000960 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 334413000961 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 334413000962 fructuronate transporter; Provisional; Region: PRK10034; cl15264 334413000963 glycerate kinase; Region: TIGR00045 334413000964 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 334413000965 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 334413000966 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 334413000967 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 334413000968 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 334413000969 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 334413000970 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413000971 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413000972 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 334413000973 Walker A/P-loop; other site 334413000974 ATP binding site [chemical binding]; other site 334413000975 Q-loop/lid; other site 334413000976 ABC transporter signature motif; other site 334413000977 Walker B; other site 334413000978 D-loop; other site 334413000979 H-loop/switch region; other site 334413000980 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 334413000981 Type II/IV secretion system protein; Region: T2SE; pfam00437 334413000982 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 334413000983 Walker A motif; other site 334413000984 ATP binding site [chemical binding]; other site 334413000985 Walker B motif; other site 334413000986 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 334413000987 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 334413000988 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 334413000989 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 334413000990 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 334413000991 Walker A/P-loop; other site 334413000992 ATP binding site [chemical binding]; other site 334413000993 Q-loop/lid; other site 334413000994 ABC transporter signature motif; other site 334413000995 Walker B; other site 334413000996 D-loop; other site 334413000997 H-loop/switch region; other site 334413000998 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 334413000999 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 334413001000 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 334413001001 dimer interface [polypeptide binding]; other site 334413001002 conserved gate region; other site 334413001003 putative PBP binding loops; other site 334413001004 ABC-ATPase subunit interface; other site 334413001005 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 334413001006 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 334413001007 dimer interface [polypeptide binding]; other site 334413001008 conserved gate region; other site 334413001009 putative PBP binding loops; other site 334413001010 ABC-ATPase subunit interface; other site 334413001011 Domain of unknown function (DUF4091); Region: DUF4091; pfam13320 334413001012 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 334413001013 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 334413001014 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 334413001015 Peptidase M16C associated; Region: M16C_assoc; pfam08367 334413001016 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 334413001017 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 334413001018 active site 334413001019 putative catalytic site [active] 334413001020 DNA binding site [nucleotide binding] 334413001021 putative phosphate binding site [ion binding]; other site 334413001022 metal binding site A [ion binding]; metal-binding site 334413001023 AP binding site [nucleotide binding]; other site 334413001024 metal binding site B [ion binding]; metal-binding site 334413001025 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 334413001026 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 334413001027 NADP binding site [chemical binding]; other site 334413001028 active site 334413001029 putative substrate binding site [chemical binding]; other site 334413001030 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 334413001031 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 334413001032 Uncharacterized conserved protein [Function unknown]; Region: COG0398 334413001033 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 334413001034 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 334413001035 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334413001036 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334413001037 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334413001038 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 334413001039 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 334413001040 ATP-grasp domain; Region: ATP-grasp_4; cl17255 334413001041 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 334413001042 homodimer interface [polypeptide binding]; other site 334413001043 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 334413001044 active site pocket [active] 334413001045 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 334413001046 catalytic residues [active] 334413001047 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 334413001048 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 334413001049 oligomer interface [polypeptide binding]; other site 334413001050 metal binding site [ion binding]; metal-binding site 334413001051 metal binding site [ion binding]; metal-binding site 334413001052 Cl binding site [ion binding]; other site 334413001053 aspartate ring; other site 334413001054 basic sphincter; other site 334413001055 putative hydrophobic gate; other site 334413001056 periplasmic entrance; other site 334413001057 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 334413001058 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 334413001059 folate binding site [chemical binding]; other site 334413001060 NADP+ binding site [chemical binding]; other site 334413001061 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 334413001062 Double zinc ribbon; Region: DZR; pfam12773 334413001063 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 334413001064 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 334413001065 substrate binding site [chemical binding]; other site 334413001066 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 334413001067 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 334413001068 Walker A/P-loop; other site 334413001069 ATP binding site [chemical binding]; other site 334413001070 Q-loop/lid; other site 334413001071 ABC transporter signature motif; other site 334413001072 Walker B; other site 334413001073 D-loop; other site 334413001074 H-loop/switch region; other site 334413001075 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 334413001076 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 334413001077 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 334413001078 Walker A/P-loop; other site 334413001079 ATP binding site [chemical binding]; other site 334413001080 Q-loop/lid; other site 334413001081 ABC transporter signature motif; other site 334413001082 Walker B; other site 334413001083 D-loop; other site 334413001084 H-loop/switch region; other site 334413001085 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 334413001086 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 334413001087 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 334413001088 dimer interface [polypeptide binding]; other site 334413001089 conserved gate region; other site 334413001090 putative PBP binding loops; other site 334413001091 ABC-ATPase subunit interface; other site 334413001092 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 334413001093 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 334413001094 dimer interface [polypeptide binding]; other site 334413001095 conserved gate region; other site 334413001096 putative PBP binding loops; other site 334413001097 ABC-ATPase subunit interface; other site 334413001098 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 334413001099 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 334413001100 peptide binding site [polypeptide binding]; other site 334413001101 DNA polymerase IV; Provisional; Region: PRK14133 334413001102 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 334413001103 active site 334413001104 DNA binding site [nucleotide binding] 334413001105 Predicted transcriptional regulators [Transcription]; Region: COG1695 334413001106 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 334413001107 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 334413001108 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 334413001109 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 334413001110 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 334413001111 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 334413001112 PAS domain; Region: PAS_9; pfam13426 334413001113 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 334413001114 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 334413001115 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 334413001116 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 334413001117 active site 334413001118 dimer interface [polypeptide binding]; other site 334413001119 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 334413001120 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 334413001121 dimer interface [polypeptide binding]; other site 334413001122 active site 334413001123 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 334413001124 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 334413001125 Methyltransferase domain; Region: Methyltransf_23; pfam13489 334413001126 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 334413001127 S-adenosylmethionine binding site [chemical binding]; other site 334413001128 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 334413001129 putative active site [active] 334413001130 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 334413001131 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 334413001132 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 334413001133 motif II; other site 334413001134 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 334413001135 Ligand Binding Site [chemical binding]; other site 334413001136 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 334413001137 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 334413001138 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 334413001139 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 334413001140 dimer interface [polypeptide binding]; other site 334413001141 putative functional site; other site 334413001142 putative MPT binding site; other site 334413001143 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 334413001144 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 334413001145 GTP binding site; other site 334413001146 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 334413001147 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 334413001148 putative active site [active] 334413001149 nucleotide binding site [chemical binding]; other site 334413001150 nudix motif; other site 334413001151 putative metal binding site [ion binding]; other site 334413001152 EamA-like transporter family; Region: EamA; pfam00892 334413001153 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 334413001154 EamA-like transporter family; Region: EamA; pfam00892 334413001155 NAD-dependent deacetylase; Provisional; Region: PRK00481 334413001156 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 334413001157 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 334413001158 EDD domain protein, DegV family; Region: DegV; TIGR00762 334413001159 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 334413001160 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 334413001161 catalytic residues [active] 334413001162 4Fe-4S binding domain; Region: Fer4_5; pfam12801 334413001163 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 334413001164 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 334413001165 active site residue [active] 334413001166 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 334413001167 active site residue [active] 334413001168 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 334413001169 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 334413001170 active site 334413001171 ATP binding site [chemical binding]; other site 334413001172 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 334413001173 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 334413001174 Probable Catalytic site; other site 334413001175 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 334413001176 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 334413001177 Cysteine-rich domain; Region: CCG; pfam02754 334413001178 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 334413001179 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 334413001180 FeS/SAM binding site; other site 334413001181 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 334413001182 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 334413001183 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 334413001184 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 334413001185 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 334413001186 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 334413001187 putative substrate binding site [chemical binding]; other site 334413001188 putative ATP binding site [chemical binding]; other site 334413001189 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 334413001190 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 334413001191 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 334413001192 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 334413001193 active site 334413001194 AIR carboxylase; Region: AIRC; pfam00731 334413001195 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 334413001196 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 334413001197 dimerization interface [polypeptide binding]; other site 334413001198 putative ATP binding site [chemical binding]; other site 334413001199 Uroporphyrinogen decarboxylase (URO-D); Region: URO-D; pfam01208 334413001200 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 334413001201 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334413001202 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334413001203 ABC transporter; Region: ABC_tran_2; pfam12848 334413001204 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334413001205 GMP synthase; Reviewed; Region: guaA; PRK00074 334413001206 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 334413001207 AMP/PPi binding site [chemical binding]; other site 334413001208 candidate oxyanion hole; other site 334413001209 catalytic triad [active] 334413001210 potential glutamine specificity residues [chemical binding]; other site 334413001211 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 334413001212 ATP Binding subdomain [chemical binding]; other site 334413001213 Ligand Binding sites [chemical binding]; other site 334413001214 Dimerization subdomain; other site 334413001215 Uncharacterized conserved protein [Function unknown]; Region: COG1479 334413001216 Protein of unknown function DUF262; Region: DUF262; pfam03235 334413001217 Protein of unknown function DUF262; Region: DUF262; pfam03235 334413001218 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 334413001219 Predicted membrane protein [Function unknown]; Region: COG4325 334413001220 aspartate kinase; Reviewed; Region: PRK09034 334413001221 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 334413001222 nucleotide binding site [chemical binding]; other site 334413001223 substrate binding site [chemical binding]; other site 334413001224 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 334413001225 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 334413001226 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 334413001227 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 334413001228 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 334413001229 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 334413001230 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 334413001231 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 334413001232 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 334413001233 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 334413001234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334413001235 catalytic residue [active] 334413001236 homoserine kinase; Provisional; Region: PRK01212 334413001237 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 334413001238 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 334413001239 magnesium-translocating P-type ATPase; Region: ATPase-IIIB_Mg; TIGR01524 334413001240 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334413001241 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 334413001242 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 334413001243 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 334413001244 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 334413001245 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 334413001246 non-specific DNA binding site [nucleotide binding]; other site 334413001247 salt bridge; other site 334413001248 sequence-specific DNA binding site [nucleotide binding]; other site 334413001249 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 334413001250 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 334413001251 metal binding site [ion binding]; metal-binding site 334413001252 dimer interface [polypeptide binding]; other site 334413001253 2-keto-3-deoxygluconate permease; Provisional; Region: PRK12460 334413001254 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 334413001255 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 334413001256 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 334413001257 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 334413001258 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 334413001259 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 334413001260 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 334413001261 ADP binding site [chemical binding]; other site 334413001262 phosphagen binding site; other site 334413001263 substrate specificity loop; other site 334413001264 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 334413001265 Clp amino terminal domain; Region: Clp_N; pfam02861 334413001266 Clp amino terminal domain; Region: Clp_N; pfam02861 334413001267 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 334413001268 Walker A motif; other site 334413001269 ATP binding site [chemical binding]; other site 334413001270 Walker B motif; other site 334413001271 arginine finger; other site 334413001272 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 334413001273 Walker A motif; other site 334413001274 ATP binding site [chemical binding]; other site 334413001275 Walker B motif; other site 334413001276 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 334413001277 DNA repair protein RadA; Provisional; Region: PRK11823 334413001278 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 334413001279 Walker A motif; other site 334413001280 ATP binding site [chemical binding]; other site 334413001281 Walker B motif; other site 334413001282 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 334413001283 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 334413001284 active site 334413001285 Zn binding site [ion binding]; other site 334413001286 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 334413001287 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 334413001288 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 334413001289 putative active site [active] 334413001290 metal binding site [ion binding]; metal-binding site 334413001291 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 334413001292 DNA polymerase I; Provisional; Region: PRK05755 334413001293 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 334413001294 active site 334413001295 metal binding site 1 [ion binding]; metal-binding site 334413001296 putative 5' ssDNA interaction site; other site 334413001297 metal binding site 3; metal-binding site 334413001298 metal binding site 2 [ion binding]; metal-binding site 334413001299 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 334413001300 putative DNA binding site [nucleotide binding]; other site 334413001301 putative metal binding site [ion binding]; other site 334413001302 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 334413001303 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 334413001304 active site 334413001305 DNA binding site [nucleotide binding] 334413001306 catalytic site [active] 334413001307 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 334413001308 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 334413001309 CoA-binding site [chemical binding]; other site 334413001310 ATP-binding [chemical binding]; other site 334413001311 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 334413001312 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 334413001313 N-acetyl-D-glucosamine binding site [chemical binding]; other site 334413001314 catalytic residue [active] 334413001315 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 334413001316 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 334413001317 E3 interaction surface; other site 334413001318 lipoyl attachment site [posttranslational modification]; other site 334413001319 SLBB domain; Region: SLBB; pfam10531 334413001320 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 334413001321 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 334413001322 FMN-binding domain; Region: FMN_bind; cl01081 334413001323 electron transport complex RsxE subunit; Provisional; Region: PRK12405 334413001324 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 334413001325 ferredoxin; Provisional; Region: PRK08764 334413001326 Putative Fe-S cluster; Region: FeS; cl17515 334413001327 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 334413001328 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 334413001329 Protein of unknown function (DUF969); Region: DUF969; pfam06149 334413001330 Predicted membrane protein [Function unknown]; Region: COG3817 334413001331 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 334413001332 putative substrate binding pocket [chemical binding]; other site 334413001333 AC domain interface; other site 334413001334 catalytic triad [active] 334413001335 AB domain interface; other site 334413001336 interchain disulfide; other site 334413001337 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 334413001338 trimer interface [polypeptide binding]; other site 334413001339 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 334413001340 hypothetical protein; Reviewed; Region: PRK00024 334413001341 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 334413001342 helix-hairpin-helix signature motif; other site 334413001343 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 334413001344 MPN+ (JAMM) motif; other site 334413001345 Zinc-binding site [ion binding]; other site 334413001346 rod shape-determining protein MreB; Provisional; Region: PRK13927 334413001347 MreB and similar proteins; Region: MreB_like; cd10225 334413001348 nucleotide binding site [chemical binding]; other site 334413001349 Mg binding site [ion binding]; other site 334413001350 putative protofilament interaction site [polypeptide binding]; other site 334413001351 RodZ interaction site [polypeptide binding]; other site 334413001352 rod shape-determining protein MreC; Provisional; Region: PRK13922 334413001353 rod shape-determining protein MreC; Region: MreC; pfam04085 334413001354 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334413001355 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334413001356 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 334413001357 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 334413001358 septum site-determining protein MinD; Region: minD_bact; TIGR01968 334413001359 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 334413001360 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 334413001361 RNA binding site [nucleotide binding]; other site 334413001362 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 334413001363 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 334413001364 Protein of unknown function (DUF464); Region: DUF464; cl01080 334413001365 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 334413001366 GTPase CgtA; Reviewed; Region: obgE; PRK12297 334413001367 GTP1/OBG; Region: GTP1_OBG; pfam01018 334413001368 Obg GTPase; Region: Obg; cd01898 334413001369 G1 box; other site 334413001370 GTP/Mg2+ binding site [chemical binding]; other site 334413001371 Switch I region; other site 334413001372 G2 box; other site 334413001373 G3 box; other site 334413001374 Switch II region; other site 334413001375 G4 box; other site 334413001376 G5 box; other site 334413001377 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 334413001378 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 334413001379 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 334413001380 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 334413001381 active site 334413001382 (T/H)XGH motif; other site 334413001383 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334413001384 Zn2+ binding site [ion binding]; other site 334413001385 Mg2+ binding site [ion binding]; other site 334413001386 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 334413001387 homotrimer interaction site [polypeptide binding]; other site 334413001388 putative active site [active] 334413001389 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413001390 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413001391 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413001392 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 334413001393 active site 334413001394 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 334413001395 GTP-binding protein YchF; Reviewed; Region: PRK09601 334413001396 YchF GTPase; Region: YchF; cd01900 334413001397 G1 box; other site 334413001398 GTP/Mg2+ binding site [chemical binding]; other site 334413001399 Switch I region; other site 334413001400 G2 box; other site 334413001401 Switch II region; other site 334413001402 G3 box; other site 334413001403 G4 box; other site 334413001404 G5 box; other site 334413001405 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 334413001406 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 334413001407 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 334413001408 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 334413001409 active site 334413001410 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 334413001411 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 334413001412 GIY-YIG motif/motif A; other site 334413001413 active site 334413001414 catalytic site [active] 334413001415 putative DNA binding site [nucleotide binding]; other site 334413001416 metal binding site [ion binding]; metal-binding site 334413001417 UvrB/uvrC motif; Region: UVR; pfam02151 334413001418 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 334413001419 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 334413001420 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 334413001421 substrate binding site [chemical binding]; other site 334413001422 multimerization interface [polypeptide binding]; other site 334413001423 ATP binding site [chemical binding]; other site 334413001424 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 334413001425 thiamine phosphate binding site [chemical binding]; other site 334413001426 active site 334413001427 pyrophosphate binding site [ion binding]; other site 334413001428 Predicted transcriptional regulators [Transcription]; Region: COG1725 334413001429 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334413001430 DNA-binding site [nucleotide binding]; DNA binding site 334413001431 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413001432 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413001433 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413001434 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 334413001435 NlpC/P60 family; Region: NLPC_P60; pfam00877 334413001436 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413001437 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413001438 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413001439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 334413001440 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 334413001441 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 334413001442 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 334413001443 Hpr binding site; other site 334413001444 active site 334413001445 homohexamer subunit interaction site [polypeptide binding]; other site 334413001446 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 334413001447 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 334413001448 dimer interface [polypeptide binding]; other site 334413001449 PYR/PP interface [polypeptide binding]; other site 334413001450 TPP binding site [chemical binding]; other site 334413001451 substrate binding site [chemical binding]; other site 334413001452 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 334413001453 Domain of unknown function; Region: EKR; pfam10371 334413001454 4Fe-4S binding domain; Region: Fer4_6; pfam12837 334413001455 4Fe-4S binding domain; Region: Fer4; pfam00037 334413001456 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 334413001457 TPP-binding site [chemical binding]; other site 334413001458 dimer interface [polypeptide binding]; other site 334413001459 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 334413001460 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 334413001461 active site 334413001462 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 334413001463 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 334413001464 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 334413001465 substrate binding site [chemical binding]; other site 334413001466 THF binding site; other site 334413001467 zinc-binding site [ion binding]; other site 334413001468 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 334413001469 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 334413001470 YacP-like NYN domain; Region: NYN_YacP; pfam05991 334413001471 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 334413001472 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 334413001473 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 334413001474 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 334413001475 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 334413001476 active site 334413001477 Na/Ca binding site [ion binding]; other site 334413001478 catalytic site [active] 334413001479 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 334413001480 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 334413001481 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 334413001482 RNA/DNA hybrid binding site [nucleotide binding]; other site 334413001483 active site 334413001484 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 334413001485 Domain of unknown function DUF21; Region: DUF21; pfam01595 334413001486 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 334413001487 Transporter associated domain; Region: CorC_HlyC; smart01091 334413001488 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334413001489 active site 334413001490 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 334413001491 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 334413001492 active site 334413001493 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 334413001494 metal-binding site [ion binding] 334413001495 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 334413001496 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 334413001497 metal-binding site [ion binding] 334413001498 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334413001499 Soluble P-type ATPase [General function prediction only]; Region: COG4087 334413001500 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 334413001501 metal-binding site [ion binding] 334413001502 Uncharacterized family 2; belongs to a superfamily containing transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_2; cd10159 334413001503 putative homodimer interface [polypeptide binding]; other site 334413001504 putative homotetramer interface [polypeptide binding]; other site 334413001505 putative allosteric switch controlling residues; other site 334413001506 putative metal binding site [ion binding]; other site 334413001507 putative homodimer-homodimer interface [polypeptide binding]; other site 334413001508 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 334413001509 30S subunit binding site; other site 334413001510 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 334413001511 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 334413001512 intersubunit interface [polypeptide binding]; other site 334413001513 active site 334413001514 catalytic residue [active] 334413001515 hypothetical protein; Provisional; Region: PRK07329 334413001516 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 334413001517 active site 334413001518 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 334413001519 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 334413001520 putative ligand binding site [chemical binding]; other site 334413001521 putative NAD binding site [chemical binding]; other site 334413001522 catalytic site [active] 334413001523 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 334413001524 Chain length determinant protein; Region: Wzz; cl15801 334413001525 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 334413001526 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 334413001527 ligand binding site [chemical binding]; other site 334413001528 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 334413001529 putative switch regulator; other site 334413001530 non-specific DNA interactions [nucleotide binding]; other site 334413001531 DNA binding site [nucleotide binding] 334413001532 sequence specific DNA binding site [nucleotide binding]; other site 334413001533 putative cAMP binding site [chemical binding]; other site 334413001534 hybrid cluster protein; Provisional; Region: PRK05290 334413001535 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 334413001536 ACS interaction site; other site 334413001537 CODH interaction site; other site 334413001538 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 334413001539 hybrid metal cluster; other site 334413001540 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334413001541 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334413001542 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 334413001543 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 334413001544 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 334413001545 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 334413001546 active site 334413001547 HIGH motif; other site 334413001548 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 334413001549 active site 334413001550 KMSKS motif; other site 334413001551 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 334413001552 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 334413001553 active site 334413001554 HIGH motif; other site 334413001555 nucleotide binding site [chemical binding]; other site 334413001556 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 334413001557 KMSKS motif; other site 334413001558 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 334413001559 tRNA binding surface [nucleotide binding]; other site 334413001560 anticodon binding site; other site 334413001561 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 334413001562 EDD domain protein, DegV family; Region: DegV; TIGR00762 334413001563 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 334413001564 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 334413001565 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 334413001566 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 334413001567 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 334413001568 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 334413001569 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 334413001570 active site 334413001571 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 334413001572 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334413001573 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334413001574 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334413001575 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 334413001576 substrate binding site [chemical binding]; other site 334413001577 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 334413001578 ATP binding site [chemical binding]; other site 334413001579 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334413001580 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334413001581 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 334413001582 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 334413001583 "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 334413001584 dimer interface [polypeptide binding]; other site 334413001585 active site 334413001586 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 334413001587 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; pfam07355 334413001588 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 334413001589 putative glycine/sarcosine/betaine reductase complex protein A; Provisional; Region: PRK14717 334413001590 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 334413001591 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 334413001592 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 334413001593 catalytic residues [active] 334413001594 selenocysteine synthase; Provisional; Region: PRK04311 334413001595 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 334413001596 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 334413001597 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334413001598 catalytic residue [active] 334413001599 Uncharacterized membrane protein [Function unknown]; Region: COG3949 334413001600 putative glycine/sarcosine/betaine reductase complex protein A; Provisional; Region: PRK14717 334413001601 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 334413001602 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 334413001603 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334413001604 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334413001605 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 334413001606 amino acid carrier protein; Region: agcS; TIGR00835 334413001607 Predicted membrane protein [Function unknown]; Region: COG2261 334413001608 exopolyphosphatase; Region: exo_poly_only; TIGR03706 334413001609 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 334413001610 polyphosphate kinase; Provisional; Region: PRK05443 334413001611 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 334413001612 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 334413001613 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 334413001614 putative active site [active] 334413001615 catalytic site [active] 334413001616 Catalytic C-terminal domain, second repeat, of uncharacterized prokaryotic polyphosphate kinases; Region: PLDc_PPK1_C2_unchar; cd09169 334413001617 putative domain interface [polypeptide binding]; other site 334413001618 putative active site [active] 334413001619 catalytic site [active] 334413001620 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 334413001621 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 334413001622 FtsH Extracellular; Region: FtsH_ext; pfam06480 334413001623 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 334413001624 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 334413001625 Walker A motif; other site 334413001626 ATP binding site [chemical binding]; other site 334413001627 Walker B motif; other site 334413001628 arginine finger; other site 334413001629 Peptidase family M41; Region: Peptidase_M41; pfam01434 334413001630 MarR family; Region: MarR_2; pfam12802 334413001631 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 334413001632 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 334413001633 Cl- selectivity filter; other site 334413001634 Cl- binding residues [ion binding]; other site 334413001635 pore gating glutamate residue; other site 334413001636 dimer interface [polypeptide binding]; other site 334413001637 H+/Cl- coupling transport residue; other site 334413001638 TrkA-C domain; Region: TrkA_C; pfam02080 334413001639 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 334413001640 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 334413001641 CPxP motif; other site 334413001642 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 334413001643 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 334413001644 Mechanosensitive ion channel; Region: MS_channel; pfam00924 334413001645 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 334413001646 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 334413001647 Ligand binding site; other site 334413001648 Putative Catalytic site; other site 334413001649 DXD motif; other site 334413001650 Predicted membrane protein [Function unknown]; Region: COG2246 334413001651 GtrA-like protein; Region: GtrA; pfam04138 334413001652 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334413001653 Coenzyme A binding pocket [chemical binding]; other site 334413001654 Amidinotransferase; Region: Amidinotransf; cl12043 334413001655 ornithine carbamoyltransferase; Validated; Region: PRK02102 334413001656 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 334413001657 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 334413001658 O-Antigen ligase; Region: Wzy_C; pfam04932 334413001659 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 334413001660 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 334413001661 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 334413001662 Ligand Binding Site [chemical binding]; other site 334413001663 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 334413001664 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334413001665 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 334413001666 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 334413001667 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 334413001668 Potassium binding sites [ion binding]; other site 334413001669 Cesium cation binding sites [ion binding]; other site 334413001670 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 334413001671 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 334413001672 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 334413001673 lipoyl attachment site [posttranslational modification]; other site 334413001674 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 334413001675 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 334413001676 tetramer interface [polypeptide binding]; other site 334413001677 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334413001678 catalytic residue [active] 334413001679 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 334413001680 tetramer interface [polypeptide binding]; other site 334413001681 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334413001682 catalytic residue [active] 334413001683 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 334413001684 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334413001685 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334413001686 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 334413001687 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 334413001688 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 334413001689 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 334413001690 protein binding site [polypeptide binding]; other site 334413001691 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 334413001692 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 334413001693 Walker A/P-loop; other site 334413001694 ATP binding site [chemical binding]; other site 334413001695 Q-loop/lid; other site 334413001696 ABC transporter signature motif; other site 334413001697 Walker B; other site 334413001698 D-loop; other site 334413001699 H-loop/switch region; other site 334413001700 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 334413001701 FeS assembly protein SufB; Region: sufB; TIGR01980 334413001702 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 334413001703 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 334413001704 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 334413001705 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 334413001706 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334413001707 catalytic residue [active] 334413001708 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 334413001709 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 334413001710 trimerization site [polypeptide binding]; other site 334413001711 active site 334413001712 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 334413001713 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 334413001714 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 334413001715 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 334413001716 transmembrane helices; other site 334413001717 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334413001718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334413001719 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 334413001720 dimerization interface [polypeptide binding]; other site 334413001721 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 334413001722 Walker A motif; other site 334413001723 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 334413001724 ApbE family; Region: ApbE; pfam02424 334413001725 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 334413001726 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 334413001727 Substrate binding site; other site 334413001728 Mg++ binding site; other site 334413001729 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 334413001730 active site 334413001731 substrate binding site [chemical binding]; other site 334413001732 CoA binding site [chemical binding]; other site 334413001733 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 334413001734 putative active site [active] 334413001735 catalytic residue [active] 334413001736 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 334413001737 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 334413001738 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 334413001739 ATP binding site [chemical binding]; other site 334413001740 putative Mg++ binding site [ion binding]; other site 334413001741 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 334413001742 nucleotide binding region [chemical binding]; other site 334413001743 ATP-binding site [chemical binding]; other site 334413001744 TRCF domain; Region: TRCF; pfam03461 334413001745 SurA N-terminal domain; Region: SurA_N_3; cl07813 334413001746 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 334413001747 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 334413001748 IHF dimer interface [polypeptide binding]; other site 334413001749 IHF - DNA interface [nucleotide binding]; other site 334413001750 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334413001751 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334413001752 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334413001753 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 334413001754 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 334413001755 active site 334413001756 ADP/pyrophosphate binding site [chemical binding]; other site 334413001757 allosteric effector site; other site 334413001758 dimerization interface [polypeptide binding]; other site 334413001759 fructose-1,6-bisphosphate binding site; other site 334413001760 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 334413001761 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334413001762 putative active site [active] 334413001763 putative metal binding site [ion binding]; other site 334413001764 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 334413001765 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 334413001766 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 334413001767 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334413001768 Walker A/P-loop; other site 334413001769 ATP binding site [chemical binding]; other site 334413001770 Q-loop/lid; other site 334413001771 ABC transporter signature motif; other site 334413001772 Walker B; other site 334413001773 D-loop; other site 334413001774 H-loop/switch region; other site 334413001775 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 334413001776 S17 interaction site [polypeptide binding]; other site 334413001777 S8 interaction site; other site 334413001778 16S rRNA interaction site [nucleotide binding]; other site 334413001779 streptomycin interaction site [chemical binding]; other site 334413001780 23S rRNA interaction site [nucleotide binding]; other site 334413001781 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 334413001782 30S ribosomal protein S7; Validated; Region: PRK05302 334413001783 elongation factor G; Reviewed; Region: PRK00007 334413001784 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 334413001785 G1 box; other site 334413001786 putative GEF interaction site [polypeptide binding]; other site 334413001787 GTP/Mg2+ binding site [chemical binding]; other site 334413001788 Switch I region; other site 334413001789 G2 box; other site 334413001790 G3 box; other site 334413001791 Switch II region; other site 334413001792 G4 box; other site 334413001793 G5 box; other site 334413001794 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 334413001795 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 334413001796 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 334413001797 elongation factor Tu; Reviewed; Region: PRK00049 334413001798 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 334413001799 G1 box; other site 334413001800 GEF interaction site [polypeptide binding]; other site 334413001801 GTP/Mg2+ binding site [chemical binding]; other site 334413001802 Switch I region; other site 334413001803 G2 box; other site 334413001804 G3 box; other site 334413001805 Switch II region; other site 334413001806 G4 box; other site 334413001807 G5 box; other site 334413001808 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 334413001809 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 334413001810 Antibiotic Binding Site [chemical binding]; other site 334413001811 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 334413001812 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334413001813 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334413001814 Walker A/P-loop; other site 334413001815 ATP binding site [chemical binding]; other site 334413001816 Q-loop/lid; other site 334413001817 ABC transporter signature motif; other site 334413001818 Walker B; other site 334413001819 D-loop; other site 334413001820 H-loop/switch region; other site 334413001821 Predicted permeases [General function prediction only]; Region: COG0679 334413001822 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 334413001823 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 334413001824 Malic enzyme, N-terminal domain; Region: malic; pfam00390 334413001825 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 334413001826 putative NAD(P) binding site [chemical binding]; other site 334413001827 peptidase T; Region: peptidase-T; TIGR01882 334413001828 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 334413001829 metal binding site [ion binding]; metal-binding site 334413001830 dimer interface [polypeptide binding]; other site 334413001831 Amino acid permease; Region: AA_permease_2; pfam13520 334413001832 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 334413001833 active site 334413001834 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 334413001835 homodimer interface [polypeptide binding]; other site 334413001836 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334413001837 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 334413001838 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 334413001839 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 334413001840 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 334413001841 catalytic loop [active] 334413001842 iron binding site [ion binding]; other site 334413001843 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 334413001844 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 334413001845 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 334413001846 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 334413001847 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 334413001848 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 334413001849 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 334413001850 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 334413001851 Catalytic site [active] 334413001852 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 334413001853 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 334413001854 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334413001855 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334413001856 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 334413001857 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 334413001858 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 334413001859 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 334413001860 Walker A motif; other site 334413001861 ATP binding site [chemical binding]; other site 334413001862 Walker B motif; other site 334413001863 arginine finger; other site 334413001864 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 334413001865 hypothetical protein; Validated; Region: PRK00153 334413001866 recombination protein RecR; Reviewed; Region: recR; PRK00076 334413001867 RecR protein; Region: RecR; pfam02132 334413001868 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 334413001869 putative active site [active] 334413001870 putative metal-binding site [ion binding]; other site 334413001871 tetramer interface [polypeptide binding]; other site 334413001872 AzlC protein; Region: AzlC; cl00570 334413001873 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 334413001874 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 334413001875 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 334413001876 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 334413001877 C-terminal domain interface [polypeptide binding]; other site 334413001878 GSH binding site (G-site) [chemical binding]; other site 334413001879 dimer interface [polypeptide binding]; other site 334413001880 flavoprotein, HI0933 family; Region: TIGR00275 334413001881 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 334413001882 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 334413001883 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 334413001884 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 334413001885 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 334413001886 Aspartase; Region: Aspartase; cd01357 334413001887 active sites [active] 334413001888 tetramer interface [polypeptide binding]; other site 334413001889 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 334413001890 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 334413001891 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 334413001892 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 334413001893 putative DNA-binding protein; Validated; Region: PRK00118 334413001894 signal recognition particle protein; Provisional; Region: PRK10867 334413001895 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 334413001896 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 334413001897 P loop; other site 334413001898 GTP binding site [chemical binding]; other site 334413001899 Signal peptide binding domain; Region: SRP_SPB; pfam02978 334413001900 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 334413001901 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 334413001902 RimM N-terminal domain; Region: RimM; pfam01782 334413001903 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 334413001904 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 334413001905 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 334413001906 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 334413001907 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 334413001908 GTP/Mg2+ binding site [chemical binding]; other site 334413001909 G4 box; other site 334413001910 G5 box; other site 334413001911 G1 box; other site 334413001912 Switch I region; other site 334413001913 G2 box; other site 334413001914 G3 box; other site 334413001915 Switch II region; other site 334413001916 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 334413001917 RNA/DNA hybrid binding site [nucleotide binding]; other site 334413001918 active site 334413001919 hypothetical protein; Reviewed; Region: PRK12497 334413001920 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 334413001921 MPT binding site; other site 334413001922 trimer interface [polypeptide binding]; other site 334413001923 elongation factor P; Validated; Region: PRK00529 334413001924 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 334413001925 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 334413001926 RNA binding site [nucleotide binding]; other site 334413001927 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 334413001928 RNA binding site [nucleotide binding]; other site 334413001929 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 334413001930 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 334413001931 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 334413001932 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 334413001933 putative homodimer interface [polypeptide binding]; other site 334413001934 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 334413001935 heterodimer interface [polypeptide binding]; other site 334413001936 homodimer interface [polypeptide binding]; other site 334413001937 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 334413001938 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 334413001939 23S rRNA interface [nucleotide binding]; other site 334413001940 L7/L12 interface [polypeptide binding]; other site 334413001941 putative thiostrepton binding site; other site 334413001942 L25 interface [polypeptide binding]; other site 334413001943 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 334413001944 mRNA/rRNA interface [nucleotide binding]; other site 334413001945 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 334413001946 Domain of unknown function DUF20; Region: UPF0118; pfam01594 334413001947 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 334413001948 23S rRNA interface [nucleotide binding]; other site 334413001949 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 334413001950 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 334413001951 core dimer interface [polypeptide binding]; other site 334413001952 peripheral dimer interface [polypeptide binding]; other site 334413001953 L10 interface [polypeptide binding]; other site 334413001954 L11 interface [polypeptide binding]; other site 334413001955 putative EF-Tu interaction site [polypeptide binding]; other site 334413001956 putative EF-G interaction site [polypeptide binding]; other site 334413001957 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 334413001958 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 334413001959 active site 334413001960 HIGH motif; other site 334413001961 KMSKS motif; other site 334413001962 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 334413001963 tRNA binding surface [nucleotide binding]; other site 334413001964 anticodon binding site; other site 334413001965 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 334413001966 putative tRNA-binding site [nucleotide binding]; other site 334413001967 dimer interface [polypeptide binding]; other site 334413001968 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 334413001969 active site 334413001970 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 334413001971 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 334413001972 putative active site [active] 334413001973 putative metal binding site [ion binding]; other site 334413001974 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 334413001975 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 334413001976 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 334413001977 S-adenosylmethionine binding site [chemical binding]; other site 334413001978 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 334413001979 catalytic residues [active] 334413001980 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 334413001981 MgtE intracellular N domain; Region: MgtE_N; smart00924 334413001982 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 334413001983 Divalent cation transporter; Region: MgtE; pfam01769 334413001984 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 334413001985 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 334413001986 GSH binding site [chemical binding]; other site 334413001987 catalytic residues [active] 334413001988 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 334413001989 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 334413001990 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 334413001991 glutamate racemase; Provisional; Region: PRK00865 334413001992 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 334413001993 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 334413001994 oligomer interface [polypeptide binding]; other site 334413001995 putative active site [active] 334413001996 metal binding site [ion binding]; metal-binding site 334413001997 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 334413001998 Predicted membrane protein [Function unknown]; Region: COG2364 334413001999 RNase_H superfamily; Region: RNase_H_2; pfam13482 334413002000 active site 334413002001 catalytic site [active] 334413002002 substrate binding site [chemical binding]; other site 334413002003 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 334413002004 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 334413002005 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334413002006 catalytic residue [active] 334413002007 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 334413002008 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 334413002009 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 334413002010 Ligand Binding Site [chemical binding]; other site 334413002011 LemA family; Region: LemA; cl00742 334413002012 Repair protein; Region: Repair_PSII; pfam04536 334413002013 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 334413002014 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 334413002015 non-specific DNA binding site [nucleotide binding]; other site 334413002016 salt bridge; other site 334413002017 sequence-specific DNA binding site [nucleotide binding]; other site 334413002018 Cupin domain; Region: Cupin_2; pfam07883 334413002019 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 334413002020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413002021 Walker A/P-loop; other site 334413002022 ATP binding site [chemical binding]; other site 334413002023 Q-loop/lid; other site 334413002024 ABC transporter signature motif; other site 334413002025 Walker B; other site 334413002026 D-loop; other site 334413002027 H-loop/switch region; other site 334413002028 TOBE domain; Region: TOBE_2; pfam08402 334413002029 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 334413002030 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 334413002031 dimer interface [polypeptide binding]; other site 334413002032 conserved gate region; other site 334413002033 putative PBP binding loops; other site 334413002034 ABC-ATPase subunit interface; other site 334413002035 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 334413002036 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 334413002037 dimer interface [polypeptide binding]; other site 334413002038 conserved gate region; other site 334413002039 putative PBP binding loops; other site 334413002040 ABC-ATPase subunit interface; other site 334413002041 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 334413002042 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 334413002043 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 334413002044 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 334413002045 Part of AAA domain; Region: AAA_19; pfam13245 334413002046 AAA domain; Region: AAA_14; pfam13173 334413002047 Family description; Region: UvrD_C_2; pfam13538 334413002048 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 334413002049 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 334413002050 nucleotide binding pocket [chemical binding]; other site 334413002051 K-X-D-G motif; other site 334413002052 catalytic site [active] 334413002053 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 334413002054 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 334413002055 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 334413002056 Dimer interface [polypeptide binding]; other site 334413002057 BRCT sequence motif; other site 334413002058 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 334413002059 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 334413002060 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 334413002061 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 334413002062 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 334413002063 GatB domain; Region: GatB_Yqey; smart00845 334413002064 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 334413002065 active site 334413002066 dimerization interface [polypeptide binding]; other site 334413002067 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 334413002068 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 334413002069 active site 334413002070 metal binding site [ion binding]; metal-binding site 334413002071 homotetramer interface [polypeptide binding]; other site 334413002072 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 334413002073 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 334413002074 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 334413002075 NAD(P) binding pocket [chemical binding]; other site 334413002076 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 334413002077 Ligand binding site; other site 334413002078 metal-binding site 334413002079 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 334413002080 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 334413002081 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 334413002082 XdhC Rossmann domain; Region: XdhC_C; pfam13478 334413002083 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 334413002084 metal binding site 2 [ion binding]; metal-binding site 334413002085 putative DNA binding helix; other site 334413002086 metal binding site 1 [ion binding]; metal-binding site 334413002087 dimer interface [polypeptide binding]; other site 334413002088 structural Zn2+ binding site [ion binding]; other site 334413002089 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 334413002090 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 334413002091 inhibitor-cofactor binding pocket; inhibition site 334413002092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334413002093 catalytic residue [active] 334413002094 Bacterial sugar transferase; Region: Bac_transf; pfam02397 334413002095 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 334413002096 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 334413002097 inhibitor-cofactor binding pocket; inhibition site 334413002098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334413002099 catalytic residue [active] 334413002100 putative trimer interface [polypeptide binding]; other site 334413002101 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 334413002102 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 334413002103 putative CoA binding site [chemical binding]; other site 334413002104 putative trimer interface [polypeptide binding]; other site 334413002105 putative active site [active] 334413002106 putative substrate binding site [chemical binding]; other site 334413002107 putative CoA binding site [chemical binding]; other site 334413002108 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 334413002109 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 334413002110 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 334413002111 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 334413002112 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 334413002113 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 334413002114 Asp23 family; Region: Asp23; pfam03780 334413002115 EDD domain protein, DegV family; Region: DegV; TIGR00762 334413002116 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 334413002117 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 334413002118 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 334413002119 dimer interface [polypeptide binding]; other site 334413002120 phosphorylation site [posttranslational modification] 334413002121 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 334413002122 ATP binding site [chemical binding]; other site 334413002123 Mg2+ binding site [ion binding]; other site 334413002124 G-X-G motif; other site 334413002125 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 334413002126 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334413002127 active site 334413002128 phosphorylation site [posttranslational modification] 334413002129 intermolecular recognition site; other site 334413002130 dimerization interface [polypeptide binding]; other site 334413002131 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 334413002132 DNA binding site [nucleotide binding] 334413002133 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 334413002134 PhoU domain; Region: PhoU; pfam01895 334413002135 PhoU domain; Region: PhoU; pfam01895 334413002136 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 334413002137 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 334413002138 Walker A/P-loop; other site 334413002139 ATP binding site [chemical binding]; other site 334413002140 Q-loop/lid; other site 334413002141 ABC transporter signature motif; other site 334413002142 Walker B; other site 334413002143 D-loop; other site 334413002144 H-loop/switch region; other site 334413002145 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 334413002146 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 334413002147 dimer interface [polypeptide binding]; other site 334413002148 conserved gate region; other site 334413002149 putative PBP binding loops; other site 334413002150 ABC-ATPase subunit interface; other site 334413002151 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 334413002152 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 334413002153 dimer interface [polypeptide binding]; other site 334413002154 conserved gate region; other site 334413002155 putative PBP binding loops; other site 334413002156 ABC-ATPase subunit interface; other site 334413002157 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 334413002158 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 334413002159 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 334413002160 active site 334413002161 homodimer interface [polypeptide binding]; other site 334413002162 YceG-like family; Region: YceG; pfam02618 334413002163 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 334413002164 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 334413002165 RNA binding surface [nucleotide binding]; other site 334413002166 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 334413002167 active site 334413002168 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 334413002169 active site 334413002170 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 334413002171 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 334413002172 Part of AAA domain; Region: AAA_19; pfam13245 334413002173 putative recombination protein RecB; Provisional; Region: PRK13909 334413002174 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 334413002175 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334413002176 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 334413002177 active site 334413002178 phosphorylation site [posttranslational modification] 334413002179 intermolecular recognition site; other site 334413002180 dimerization interface [polypeptide binding]; other site 334413002181 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 334413002182 DNA binding site [nucleotide binding] 334413002183 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334413002184 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 334413002185 dimerization interface [polypeptide binding]; other site 334413002186 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 334413002187 dimer interface [polypeptide binding]; other site 334413002188 phosphorylation site [posttranslational modification] 334413002189 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 334413002190 ATP binding site [chemical binding]; other site 334413002191 Mg2+ binding site [ion binding]; other site 334413002192 G-X-G motif; other site 334413002193 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 334413002194 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 334413002195 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 334413002196 active site 334413002197 catalytic site [active] 334413002198 cell division protein MraZ; Reviewed; Region: PRK00326 334413002199 MraZ protein; Region: MraZ; pfam02381 334413002200 MraZ protein; Region: MraZ; pfam02381 334413002201 MraW methylase family; Region: Methyltransf_5; cl17771 334413002202 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 334413002203 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 334413002204 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 334413002205 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334413002206 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 334413002207 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 334413002208 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 334413002209 Mg++ binding site [ion binding]; other site 334413002210 putative catalytic motif [active] 334413002211 putative substrate binding site [chemical binding]; other site 334413002212 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 334413002213 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 334413002214 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334413002215 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334413002216 cell division protein FtsW; Region: ftsW; TIGR02614 334413002217 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 334413002218 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 334413002219 active site 334413002220 homodimer interface [polypeptide binding]; other site 334413002221 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 334413002222 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 334413002223 cell division protein FtsZ; Validated; Region: PRK09330 334413002224 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 334413002225 nucleotide binding site [chemical binding]; other site 334413002226 SulA interaction site; other site 334413002227 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 334413002228 ATP cone domain; Region: ATP-cone; pfam03477 334413002229 recombination factor protein RarA; Reviewed; Region: PRK13342 334413002230 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 334413002231 Walker A motif; other site 334413002232 ATP binding site [chemical binding]; other site 334413002233 Walker B motif; other site 334413002234 arginine finger; other site 334413002235 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 334413002236 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 334413002237 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 334413002238 putative dimer interface [polypeptide binding]; other site 334413002239 putative anticodon binding site; other site 334413002240 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 334413002241 homodimer interface [polypeptide binding]; other site 334413002242 motif 1; other site 334413002243 motif 2; other site 334413002244 active site 334413002245 motif 3; other site 334413002246 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 334413002247 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 334413002248 HIGH motif; other site 334413002249 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 334413002250 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 334413002251 active site 334413002252 KMSKS motif; other site 334413002253 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 334413002254 tRNA binding surface [nucleotide binding]; other site 334413002255 Transcriptional regulator; Region: Rrf2; cl17282 334413002256 Rrf2 family protein; Region: rrf2_super; TIGR00738 334413002257 Domain of unknown function DUF20; Region: UPF0118; pfam01594 334413002258 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 334413002259 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 334413002260 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 334413002261 motif 1; other site 334413002262 active site 334413002263 motif 2; other site 334413002264 motif 3; other site 334413002265 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 334413002266 DHHA1 domain; Region: DHHA1; pfam02272 334413002267 hypothetical protein; Provisional; Region: PRK05473 334413002268 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 334413002269 ferric uptake regulator; Provisional; Region: fur; PRK09462 334413002270 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 334413002271 metal binding site 2 [ion binding]; metal-binding site 334413002272 putative DNA binding helix; other site 334413002273 metal binding site 1 [ion binding]; metal-binding site 334413002274 dimer interface [polypeptide binding]; other site 334413002275 structural Zn2+ binding site [ion binding]; other site 334413002276 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 334413002277 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334413002278 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 334413002279 Protein of unknown function (DUF964); Region: DUF964; pfam06133 334413002280 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 334413002281 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 334413002282 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 334413002283 S-adenosylmethionine binding site [chemical binding]; other site 334413002284 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 334413002285 Peptidase family U32; Region: Peptidase_U32; pfam01136 334413002286 HlyD family secretion protein; Region: HlyD_2; pfam12700 334413002287 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 334413002288 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 334413002289 catalytic residue [active] 334413002290 Protein of unknown function (DUF552); Region: DUF552; pfam04472 334413002291 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 334413002292 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 334413002293 lipoprotein signal peptidase; Provisional; Region: PRK14787 334413002294 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 334413002295 ligand binding site [chemical binding]; other site 334413002296 active site 334413002297 UGI interface [polypeptide binding]; other site 334413002298 catalytic site [active] 334413002299 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 334413002300 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 334413002301 RNA binding surface [nucleotide binding]; other site 334413002302 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 334413002303 active site 334413002304 EDD domain protein, DegV family; Region: DegV; TIGR00762 334413002305 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 334413002306 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 334413002307 Staphylococcal nuclease homologues; Region: SNc; smart00318 334413002308 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 334413002309 Catalytic site; other site 334413002310 Predicted secreted protein [Function unknown]; Region: COG4086 334413002311 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 334413002312 peroxiredoxin; Region: AhpC; TIGR03137 334413002313 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 334413002314 dimer interface [polypeptide binding]; other site 334413002315 decamer (pentamer of dimers) interface [polypeptide binding]; other site 334413002316 catalytic triad [active] 334413002317 peroxidatic and resolving cysteines [active] 334413002318 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 334413002319 Part of AAA domain; Region: AAA_19; pfam13245 334413002320 Family description; Region: UvrD_C_2; pfam13538 334413002321 Nitroreductase family; Region: Nitroreductase; pfam00881 334413002322 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 334413002323 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 334413002324 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 334413002325 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 334413002326 dimer interface [polypeptide binding]; other site 334413002327 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 334413002328 conserved gate region; other site 334413002329 putative PBP binding loops; other site 334413002330 ABC-ATPase subunit interface; other site 334413002331 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413002332 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334413002333 Walker A/P-loop; other site 334413002334 ATP binding site [chemical binding]; other site 334413002335 Q-loop/lid; other site 334413002336 ABC transporter signature motif; other site 334413002337 Walker B; other site 334413002338 D-loop; other site 334413002339 H-loop/switch region; other site 334413002340 ribonuclease R; Region: RNase_R; TIGR02063 334413002341 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 334413002342 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 334413002343 RNB domain; Region: RNB; pfam00773 334413002344 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 334413002345 RNA binding site [nucleotide binding]; other site 334413002346 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 334413002347 SmpB-tmRNA interface; other site 334413002348 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 334413002349 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 334413002350 Domain of unknown function (DUF814); Region: DUF814; pfam05670 334413002351 hypothetical protein; Provisional; Region: PRK11820 334413002352 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 334413002353 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 334413002354 hypothetical protein; Provisional; Region: PRK04323 334413002355 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 334413002356 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 334413002357 catalytic site [active] 334413002358 G-X2-G-X-G-K; other site 334413002359 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 334413002360 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 334413002361 Flavoprotein; Region: Flavoprotein; pfam02441 334413002362 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 334413002363 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 334413002364 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 334413002365 ATP binding site [chemical binding]; other site 334413002366 putative Mg++ binding site [ion binding]; other site 334413002367 Ribosomal protein L37e; Region: Ribosomal_L37e; cl00932 334413002368 helicase superfamily c-terminal domain; Region: HELICc; smart00490 334413002369 ATP-binding site [chemical binding]; other site 334413002370 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 334413002371 active site 334413002372 catalytic residues [active] 334413002373 metal binding site [ion binding]; metal-binding site 334413002374 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 334413002375 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 334413002376 putative active site [active] 334413002377 substrate binding site [chemical binding]; other site 334413002378 putative cosubstrate binding site; other site 334413002379 catalytic site [active] 334413002380 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 334413002381 substrate binding site [chemical binding]; other site 334413002382 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 334413002383 NusB family; Region: NusB; pfam01029 334413002384 16S rRNA methyltransferase B; Provisional; Region: PRK14902 334413002385 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 334413002386 S-adenosylmethionine binding site [chemical binding]; other site 334413002387 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 334413002388 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 334413002389 FeS/SAM binding site; other site 334413002390 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 334413002391 Protein phosphatase 2C; Region: PP2C; pfam00481 334413002392 active site 334413002393 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 334413002394 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 334413002395 active site 334413002396 ATP binding site [chemical binding]; other site 334413002397 substrate binding site [chemical binding]; other site 334413002398 activation loop (A-loop); other site 334413002399 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 334413002400 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 334413002401 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 334413002402 GTPase RsgA; Reviewed; Region: PRK00098 334413002403 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 334413002404 RNA binding site [nucleotide binding]; other site 334413002405 homodimer interface [polypeptide binding]; other site 334413002406 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 334413002407 GTPase/Zn-binding domain interface [polypeptide binding]; other site 334413002408 GTP/Mg2+ binding site [chemical binding]; other site 334413002409 G4 box; other site 334413002410 G5 box; other site 334413002411 G1 box; other site 334413002412 Switch I region; other site 334413002413 G2 box; other site 334413002414 G3 box; other site 334413002415 Switch II region; other site 334413002416 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 334413002417 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 334413002418 substrate binding site [chemical binding]; other site 334413002419 hexamer interface [polypeptide binding]; other site 334413002420 metal binding site [ion binding]; metal-binding site 334413002421 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 334413002422 Thiamine pyrophosphokinase; Region: TPK; cd07995 334413002423 active site 334413002424 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 334413002425 dimerization interface [polypeptide binding]; other site 334413002426 thiamine binding site [chemical binding]; other site 334413002427 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 334413002428 Asp23 family; Region: Asp23; pfam03780 334413002429 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 334413002430 DAK2 domain; Region: Dak2; pfam02734 334413002431 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 334413002432 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 334413002433 ssDNA binding site; other site 334413002434 generic binding surface II; other site 334413002435 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 334413002436 ATP binding site [chemical binding]; other site 334413002437 putative Mg++ binding site [ion binding]; other site 334413002438 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 334413002439 nucleotide binding region [chemical binding]; other site 334413002440 ATP-binding site [chemical binding]; other site 334413002441 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 334413002442 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 334413002443 S-adenosylmethionine binding site [chemical binding]; other site 334413002444 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 334413002445 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 334413002446 active site 334413002447 (T/H)XGH motif; other site 334413002448 ribonuclease Y; Region: RNase_Y; TIGR03319 334413002449 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 334413002450 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 334413002451 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 334413002452 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 334413002453 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 334413002454 Domain of unknown function DUF21; Region: DUF21; pfam01595 334413002455 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 334413002456 Transporter associated domain; Region: CorC_HlyC; pfam03471 334413002457 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 334413002458 active site 334413002459 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 334413002460 hypothetical protein; Provisional; Region: PRK13670 334413002461 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 334413002462 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 334413002463 histidyl-tRNA synthetase; Region: hisS; TIGR00442 334413002464 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 334413002465 dimer interface [polypeptide binding]; other site 334413002466 motif 1; other site 334413002467 active site 334413002468 motif 2; other site 334413002469 motif 3; other site 334413002470 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 334413002471 anticodon binding site; other site 334413002472 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 334413002473 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 334413002474 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 334413002475 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 334413002476 active site 334413002477 dimer interface [polypeptide binding]; other site 334413002478 motif 1; other site 334413002479 motif 2; other site 334413002480 motif 3; other site 334413002481 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 334413002482 anticodon binding site; other site 334413002483 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413002484 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413002485 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413002486 Walker A/P-loop; other site 334413002487 ATP binding site [chemical binding]; other site 334413002488 Q-loop/lid; other site 334413002489 ABC transporter signature motif; other site 334413002490 Walker B; other site 334413002491 D-loop; other site 334413002492 H-loop/switch region; other site 334413002493 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413002494 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413002495 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 334413002496 Walker A/P-loop; other site 334413002497 ATP binding site [chemical binding]; other site 334413002498 Q-loop/lid; other site 334413002499 ABC transporter signature motif; other site 334413002500 Walker B; other site 334413002501 D-loop; other site 334413002502 H-loop/switch region; other site 334413002503 Uncharacterized conserved protein [Function unknown]; Region: COG2898 334413002504 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 334413002505 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 334413002506 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 334413002507 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 334413002508 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 334413002509 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 334413002510 23S rRNA binding site [nucleotide binding]; other site 334413002511 L21 binding site [polypeptide binding]; other site 334413002512 L13 binding site [polypeptide binding]; other site 334413002513 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 334413002514 GIY-YIG motif/motif A; other site 334413002515 putative active site [active] 334413002516 putative metal binding site [ion binding]; other site 334413002517 RecX family; Region: RecX; cl00936 334413002518 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 334413002519 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 334413002520 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334413002521 active site 334413002522 metal binding site [ion binding]; metal-binding site 334413002523 DNA binding site [nucleotide binding] 334413002524 AAA domain; Region: AAA_23; pfam13476 334413002525 P-loop containing region of AAA domain; Region: AAA_29; cl17516 334413002526 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 334413002527 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334413002528 active site 334413002529 metal binding site [ion binding]; metal-binding site 334413002530 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 334413002531 putative active site; other site 334413002532 putative metal binding residues [ion binding]; other site 334413002533 signature motif; other site 334413002534 putative triphosphate binding site [ion binding]; other site 334413002535 DNA topoisomerase I; Validated; Region: PRK05582 334413002536 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 334413002537 active site 334413002538 interdomain interaction site; other site 334413002539 putative metal-binding site [ion binding]; other site 334413002540 nucleotide binding site [chemical binding]; other site 334413002541 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 334413002542 domain I; other site 334413002543 DNA binding groove [nucleotide binding] 334413002544 phosphate binding site [ion binding]; other site 334413002545 domain II; other site 334413002546 domain III; other site 334413002547 nucleotide binding site [chemical binding]; other site 334413002548 catalytic site [active] 334413002549 domain IV; other site 334413002550 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 334413002551 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 334413002552 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 334413002553 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 334413002554 rRNA interaction site [nucleotide binding]; other site 334413002555 S8 interaction site; other site 334413002556 putative laminin-1 binding site; other site 334413002557 elongation factor Ts; Reviewed; Region: tsf; PRK12332 334413002558 UBA/TS-N domain; Region: UBA; pfam00627 334413002559 Elongation factor TS; Region: EF_TS; pfam00889 334413002560 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 334413002561 putative nucleotide binding site [chemical binding]; other site 334413002562 uridine monophosphate binding site [chemical binding]; other site 334413002563 homohexameric interface [polypeptide binding]; other site 334413002564 ribosome recycling factor; Reviewed; Region: frr; PRK00083 334413002565 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 334413002566 hinge region; other site 334413002567 Bacterial SH3 domain; Region: SH3_3; pfam08239 334413002568 Bacterial SH3 domain; Region: SH3_3; pfam08239 334413002569 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 334413002570 NlpC/P60 family; Region: NLPC_P60; pfam00877 334413002571 comEA protein; Region: comE; TIGR01259 334413002572 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 334413002573 selenophosphate synthetase; Provisional; Region: PRK00943 334413002574 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 334413002575 dimerization interface [polypeptide binding]; other site 334413002576 putative ATP binding site [chemical binding]; other site 334413002577 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334413002578 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 334413002579 active site 334413002580 phosphorylation site [posttranslational modification] 334413002581 intermolecular recognition site; other site 334413002582 dimerization interface [polypeptide binding]; other site 334413002583 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 334413002584 DNA binding site [nucleotide binding] 334413002585 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; cl00197 334413002586 active site 334413002587 thymidine kinase; Provisional; Region: PRK04296 334413002588 S-ribosylhomocysteinase; Provisional; Region: PRK02260 334413002589 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 334413002590 endonuclease IV; Provisional; Region: PRK01060 334413002591 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 334413002592 AP (apurinic/apyrimidinic) site pocket; other site 334413002593 DNA interaction; other site 334413002594 Metal-binding active site; metal-binding site 334413002595 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 334413002596 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 334413002597 minor groove reading motif; other site 334413002598 helix-hairpin-helix signature motif; other site 334413002599 substrate binding pocket [chemical binding]; other site 334413002600 active site 334413002601 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 334413002602 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 334413002603 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 334413002604 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 334413002605 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 334413002606 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 334413002607 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 334413002608 dihydroorotase; Validated; Region: pyrC; PRK09357 334413002609 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 334413002610 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 334413002611 active site 334413002612 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 334413002613 active site 334413002614 dimer interface [polypeptide binding]; other site 334413002615 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 334413002616 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 334413002617 FAD binding pocket [chemical binding]; other site 334413002618 FAD binding motif [chemical binding]; other site 334413002619 phosphate binding motif [ion binding]; other site 334413002620 beta-alpha-beta structure motif; other site 334413002621 NAD binding pocket [chemical binding]; other site 334413002622 Iron coordination center [ion binding]; other site 334413002623 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 334413002624 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 334413002625 heterodimer interface [polypeptide binding]; other site 334413002626 active site 334413002627 FMN binding site [chemical binding]; other site 334413002628 homodimer interface [polypeptide binding]; other site 334413002629 substrate binding site [chemical binding]; other site 334413002630 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334413002631 active site 334413002632 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; cl00230 334413002633 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 334413002634 catalytic residue [active] 334413002635 putative FPP diphosphate binding site; other site 334413002636 putative FPP binding hydrophobic cleft; other site 334413002637 dimer interface [polypeptide binding]; other site 334413002638 putative IPP diphosphate binding site; other site 334413002639 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 334413002640 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 334413002641 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 334413002642 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 334413002643 active site 334413002644 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 334413002645 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 334413002646 putative substrate binding region [chemical binding]; other site 334413002647 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 334413002648 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 334413002649 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 334413002650 DNA polymerase III PolC; Validated; Region: polC; PRK00448 334413002651 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 334413002652 generic binding surface I; other site 334413002653 generic binding surface II; other site 334413002654 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 334413002655 active site 334413002656 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 334413002657 active site 334413002658 catalytic site [active] 334413002659 substrate binding site [chemical binding]; other site 334413002660 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 334413002661 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 334413002662 PhoH-like protein; Region: PhoH; pfam02562 334413002663 metal-binding heat shock protein; Provisional; Region: PRK00016 334413002664 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 334413002665 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 334413002666 active site 334413002667 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 334413002668 active site 334413002669 catalytic motif [active] 334413002670 Zn binding site [ion binding]; other site 334413002671 GTPase Era; Reviewed; Region: era; PRK00089 334413002672 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 334413002673 G1 box; other site 334413002674 GTP/Mg2+ binding site [chemical binding]; other site 334413002675 Switch I region; other site 334413002676 G2 box; other site 334413002677 Switch II region; other site 334413002678 G3 box; other site 334413002679 G4 box; other site 334413002680 G5 box; other site 334413002681 DNA repair protein RecO; Region: reco; TIGR00613 334413002682 Recombination protein O N terminal; Region: RecO_N; pfam11967 334413002683 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 334413002684 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 334413002685 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 334413002686 active site 334413002687 ATP binding site [chemical binding]; other site 334413002688 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 334413002689 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 334413002690 Protein phosphatase 2C; Region: PP2C; pfam00481 334413002691 active site 334413002692 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 334413002693 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 334413002694 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 334413002695 FeS/SAM binding site; other site 334413002696 TRAM domain; Region: TRAM; pfam01938 334413002697 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 334413002698 MutS domain I; Region: MutS_I; pfam01624 334413002699 MutS domain II; Region: MutS_II; pfam05188 334413002700 MutS domain III; Region: MutS_III; pfam05192 334413002701 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 334413002702 Walker A/P-loop; other site 334413002703 ATP binding site [chemical binding]; other site 334413002704 Q-loop/lid; other site 334413002705 ABC transporter signature motif; other site 334413002706 Walker B; other site 334413002707 D-loop; other site 334413002708 H-loop/switch region; other site 334413002709 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 334413002710 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 334413002711 ATP binding site [chemical binding]; other site 334413002712 Mg2+ binding site [ion binding]; other site 334413002713 G-X-G motif; other site 334413002714 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 334413002715 ATP binding site [chemical binding]; other site 334413002716 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 334413002717 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 334413002718 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 334413002719 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 334413002720 Aluminium resistance protein; Region: Alum_res; pfam06838 334413002721 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 334413002722 LexA repressor; Validated; Region: PRK00215 334413002723 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 334413002724 Catalytic site [active] 334413002725 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 334413002726 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 334413002727 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 334413002728 active site 334413002729 DNA binding site [nucleotide binding] 334413002730 Int/Topo IB signature motif; other site 334413002731 aspartate aminotransferase; Provisional; Region: PRK05764 334413002732 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 334413002733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334413002734 homodimer interface [polypeptide binding]; other site 334413002735 catalytic residue [active] 334413002736 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 334413002737 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 334413002738 active site 334413002739 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 334413002740 phosphodiesterase; Provisional; Region: PRK12704 334413002741 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334413002742 Zn2+ binding site [ion binding]; other site 334413002743 Mg2+ binding site [ion binding]; other site 334413002744 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413002745 ABC transporter signature motif; other site 334413002746 Walker B; other site 334413002747 D-loop; other site 334413002748 H-loop/switch region; other site 334413002749 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413002750 Walker A/P-loop; other site 334413002751 ATP binding site [chemical binding]; other site 334413002752 Q-loop/lid; other site 334413002753 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 334413002754 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334413002755 active site 334413002756 metal binding site [ion binding]; metal-binding site 334413002757 DNA binding site [nucleotide binding] 334413002758 recombinase A; Provisional; Region: recA; PRK09354 334413002759 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 334413002760 hexamer interface [polypeptide binding]; other site 334413002761 Walker A motif; other site 334413002762 ATP binding site [chemical binding]; other site 334413002763 Walker B motif; other site 334413002764 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 334413002765 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 334413002766 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 334413002767 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 334413002768 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 334413002769 trimer interface [polypeptide binding]; other site 334413002770 active site 334413002771 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 334413002772 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 334413002773 RNase E interface [polypeptide binding]; other site 334413002774 trimer interface [polypeptide binding]; other site 334413002775 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 334413002776 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 334413002777 RNase E interface [polypeptide binding]; other site 334413002778 trimer interface [polypeptide binding]; other site 334413002779 active site 334413002780 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 334413002781 putative nucleic acid binding region [nucleotide binding]; other site 334413002782 G-X-X-G motif; other site 334413002783 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 334413002784 RNA binding site [nucleotide binding]; other site 334413002785 domain interface; other site 334413002786 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 334413002787 16S/18S rRNA binding site [nucleotide binding]; other site 334413002788 S13e-L30e interaction site [polypeptide binding]; other site 334413002789 25S rRNA binding site [nucleotide binding]; other site 334413002790 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 334413002791 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 334413002792 active site 334413002793 Riboflavin kinase; Region: Flavokinase; pfam01687 334413002794 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 334413002795 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 334413002796 RNA binding site [nucleotide binding]; other site 334413002797 active site 334413002798 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 334413002799 DHH family; Region: DHH; pfam01368 334413002800 DHHA1 domain; Region: DHHA1; pfam02272 334413002801 Ribosome-binding factor A; Region: RBFA; pfam02033 334413002802 translation initiation factor IF-2; Validated; Region: infB; PRK05306 334413002803 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 334413002804 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 334413002805 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 334413002806 G1 box; other site 334413002807 putative GEF interaction site [polypeptide binding]; other site 334413002808 GTP/Mg2+ binding site [chemical binding]; other site 334413002809 Switch I region; other site 334413002810 G2 box; other site 334413002811 G3 box; other site 334413002812 Switch II region; other site 334413002813 G4 box; other site 334413002814 G5 box; other site 334413002815 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 334413002816 Translation-initiation factor 2; Region: IF-2; pfam11987 334413002817 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 334413002818 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 334413002819 putative RNA binding cleft [nucleotide binding]; other site 334413002820 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 334413002821 NusA N-terminal domain; Region: NusA_N; pfam08529 334413002822 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 334413002823 RNA binding site [nucleotide binding]; other site 334413002824 homodimer interface [polypeptide binding]; other site 334413002825 NusA-like KH domain; Region: KH_5; pfam13184 334413002826 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 334413002827 G-X-X-G motif; other site 334413002828 Sm and related proteins; Region: Sm_like; cl00259 334413002829 ribosome maturation protein RimP; Reviewed; Region: PRK00092 334413002830 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 334413002831 putative oligomer interface [polypeptide binding]; other site 334413002832 putative RNA binding site [nucleotide binding]; other site 334413002833 hypothetical protein; Provisional; Region: PRK13665 334413002834 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 334413002835 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 334413002836 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 334413002837 nucleotide binding site/active site [active] 334413002838 HIT family signature motif; other site 334413002839 catalytic residue [active] 334413002840 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 334413002841 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 334413002842 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 334413002843 FeS/SAM binding site; other site 334413002844 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 334413002845 RNA methyltransferase, RsmE family; Region: TIGR00046 334413002846 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 334413002847 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 334413002848 S-adenosylmethionine binding site [chemical binding]; other site 334413002849 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 334413002850 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 334413002851 HSP70 interaction site [polypeptide binding]; other site 334413002852 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 334413002853 substrate binding site [polypeptide binding]; other site 334413002854 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 334413002855 Zn binding sites [ion binding]; other site 334413002856 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 334413002857 dimer interface [polypeptide binding]; other site 334413002858 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 334413002859 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 334413002860 nucleotide binding site [chemical binding]; other site 334413002861 NEF interaction site [polypeptide binding]; other site 334413002862 SBD interface [polypeptide binding]; other site 334413002863 GrpE; Region: GrpE; pfam01025 334413002864 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 334413002865 dimer interface [polypeptide binding]; other site 334413002866 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 334413002867 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 334413002868 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 334413002869 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 334413002870 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 334413002871 FeS/SAM binding site; other site 334413002872 HemN C-terminal domain; Region: HemN_C; pfam06969 334413002873 GTP-binding protein LepA; Provisional; Region: PRK05433 334413002874 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 334413002875 G1 box; other site 334413002876 putative GEF interaction site [polypeptide binding]; other site 334413002877 GTP/Mg2+ binding site [chemical binding]; other site 334413002878 Switch I region; other site 334413002879 G2 box; other site 334413002880 G3 box; other site 334413002881 Switch II region; other site 334413002882 G4 box; other site 334413002883 G5 box; other site 334413002884 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 334413002885 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 334413002886 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 334413002887 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 334413002888 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 334413002889 Catalytic site [active] 334413002890 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 334413002891 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 334413002892 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 334413002893 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 334413002894 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 334413002895 Competence protein; Region: Competence; pfam03772 334413002896 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334413002897 enolase; Provisional; Region: eno; PRK00077 334413002898 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 334413002899 dimer interface [polypeptide binding]; other site 334413002900 metal binding site [ion binding]; metal-binding site 334413002901 substrate binding pocket [chemical binding]; other site 334413002902 phosphoglyceromutase; Provisional; Region: PRK05434 334413002903 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 334413002904 triosephosphate isomerase; Provisional; Region: PRK14567 334413002905 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 334413002906 substrate binding site [chemical binding]; other site 334413002907 dimer interface [polypeptide binding]; other site 334413002908 catalytic triad [active] 334413002909 Phosphoglycerate kinase; Region: PGK; pfam00162 334413002910 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 334413002911 substrate binding site [chemical binding]; other site 334413002912 hinge regions; other site 334413002913 ADP binding site [chemical binding]; other site 334413002914 catalytic site [active] 334413002915 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 334413002916 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 334413002917 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 334413002918 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 334413002919 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 334413002920 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 334413002921 PhoU domain; Region: PhoU; pfam01895 334413002922 PhoU domain; Region: PhoU; pfam01895 334413002923 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 334413002924 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 334413002925 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 334413002926 TPP-binding site [chemical binding]; other site 334413002927 dimer interface [polypeptide binding]; other site 334413002928 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 334413002929 PYR/PP interface [polypeptide binding]; other site 334413002930 dimer interface [polypeptide binding]; other site 334413002931 TPP binding site [chemical binding]; other site 334413002932 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 334413002933 DNA protecting protein DprA; Region: dprA; TIGR00732 334413002934 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 334413002935 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 334413002936 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 334413002937 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 334413002938 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 334413002939 pyruvate phosphate dikinase; Provisional; Region: PRK09279 334413002940 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 334413002941 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 334413002942 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 334413002943 FemAB family; Region: FemAB; pfam02388 334413002944 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 334413002945 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 334413002946 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 334413002947 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 334413002948 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 334413002949 dimerization interface [polypeptide binding]; other site 334413002950 domain crossover interface; other site 334413002951 redox-dependent activation switch; other site 334413002952 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 334413002953 DNA-binding site [nucleotide binding]; DNA binding site 334413002954 RNA-binding motif; other site 334413002955 Methyltransferase domain; Region: Methyltransf_31; pfam13847 334413002956 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 334413002957 S-adenosylmethionine binding site [chemical binding]; other site 334413002958 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334413002959 active site 334413002960 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 334413002961 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 334413002962 active site 334413002963 HIGH motif; other site 334413002964 nucleotide binding site [chemical binding]; other site 334413002965 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 334413002966 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 334413002967 active site 334413002968 KMSKS motif; other site 334413002969 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 334413002970 tRNA binding surface [nucleotide binding]; other site 334413002971 anticodon binding site; other site 334413002972 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 334413002973 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334413002974 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 334413002975 putative active site [active] 334413002976 dimerization interface [polypeptide binding]; other site 334413002977 putative tRNAtyr binding site [nucleotide binding]; other site 334413002978 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 334413002979 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334413002980 Zn2+ binding site [ion binding]; other site 334413002981 Mg2+ binding site [ion binding]; other site 334413002982 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 334413002983 synthetase active site [active] 334413002984 NTP binding site [chemical binding]; other site 334413002985 metal binding site [ion binding]; metal-binding site 334413002986 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 334413002987 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 334413002988 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 334413002989 DHH family; Region: DHH; pfam01368 334413002990 DHHA1 domain; Region: DHHA1; pfam02272 334413002991 Preprotein translocase subunit; Region: YajC; pfam02699 334413002992 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 334413002993 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 334413002994 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 334413002995 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 334413002996 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 334413002997 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 334413002998 Walker A motif; other site 334413002999 ATP binding site [chemical binding]; other site 334413003000 Walker B motif; other site 334413003001 arginine finger; other site 334413003002 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 334413003003 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 334413003004 RuvA N terminal domain; Region: RuvA_N; pfam01330 334413003005 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 334413003006 active site 334413003007 putative DNA-binding cleft [nucleotide binding]; other site 334413003008 dimer interface [polypeptide binding]; other site 334413003009 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 334413003010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 334413003011 NAD(P) binding site [chemical binding]; other site 334413003012 active site 334413003013 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334413003014 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 334413003015 active site 334413003016 phosphorylation site [posttranslational modification] 334413003017 intermolecular recognition site; other site 334413003018 dimerization interface [polypeptide binding]; other site 334413003019 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 334413003020 DNA binding site [nucleotide binding] 334413003021 HAMP domain; Region: HAMP; pfam00672 334413003022 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334413003023 dimerization interface [polypeptide binding]; other site 334413003024 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 334413003025 dimer interface [polypeptide binding]; other site 334413003026 phosphorylation site [posttranslational modification] 334413003027 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 334413003028 ATP binding site [chemical binding]; other site 334413003029 Mg2+ binding site [ion binding]; other site 334413003030 G-X-G motif; other site 334413003031 Uncharacterized conserved protein [Function unknown]; Region: COG0327 334413003032 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 334413003033 Family of unknown function (DUF633); Region: DUF633; pfam04816 334413003034 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 334413003035 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 334413003036 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 334413003037 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 334413003038 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 334413003039 DNA binding residues [nucleotide binding] 334413003040 DNA primase; Validated; Region: dnaG; PRK05667 334413003041 CHC2 zinc finger; Region: zf-CHC2; pfam01807 334413003042 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 334413003043 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 334413003044 active site 334413003045 metal binding site [ion binding]; metal-binding site 334413003046 interdomain interaction site; other site 334413003047 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 334413003048 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 334413003049 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334413003050 Zn2+ binding site [ion binding]; other site 334413003051 Mg2+ binding site [ion binding]; other site 334413003052 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 334413003053 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 334413003054 LytB protein; Region: LYTB; cl00507 334413003055 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 334413003056 RNA binding site [nucleotide binding]; other site 334413003057 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 334413003058 RNA binding site [nucleotide binding]; other site 334413003059 S1_RPS1_repeat_ec3: 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_ec3; cd05688 334413003060 RNA binding site [nucleotide binding]; other site 334413003061 S1_RPS1_repeat_ec3: 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_ec3; cd05688 334413003062 RNA binding site [nucleotide binding]; other site 334413003063 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 334413003064 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 334413003065 putative acyl-acceptor binding pocket; other site 334413003066 cytidylate kinase; Provisional; Region: cmk; PRK00023 334413003067 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 334413003068 CMP-binding site; other site 334413003069 The sites determining sugar specificity; other site 334413003070 flavoprotein, HI0933 family; Region: TIGR00275 334413003071 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 334413003072 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 334413003073 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 334413003074 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 334413003075 RNA binding surface [nucleotide binding]; other site 334413003076 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 334413003077 active site 334413003078 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 334413003079 ScpA/B protein; Region: ScpA_ScpB; cl00598 334413003080 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 334413003081 Peptidase family M50; Region: Peptidase_M50; pfam02163 334413003082 active site 334413003083 putative substrate binding region [chemical binding]; other site 334413003084 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 334413003085 dimer interface [polypeptide binding]; other site 334413003086 ADP-ribose binding site [chemical binding]; other site 334413003087 active site 334413003088 nudix motif; other site 334413003089 metal binding site [ion binding]; metal-binding site 334413003090 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 334413003091 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 334413003092 Walker A/P-loop; other site 334413003093 ATP binding site [chemical binding]; other site 334413003094 Q-loop/lid; other site 334413003095 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 334413003096 ABC transporter signature motif; other site 334413003097 Walker B; other site 334413003098 D-loop; other site 334413003099 H-loop/switch region; other site 334413003100 Arginine repressor [Transcription]; Region: ArgR; COG1438 334413003101 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 334413003102 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 334413003103 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 334413003104 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 334413003105 RNA binding surface [nucleotide binding]; other site 334413003106 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 334413003107 S-adenosylmethionine binding site [chemical binding]; other site 334413003108 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 334413003109 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 334413003110 substrate binding pocket [chemical binding]; other site 334413003111 chain length determination region; other site 334413003112 substrate-Mg2+ binding site; other site 334413003113 catalytic residues [active] 334413003114 aspartate-rich region 1; other site 334413003115 active site lid residues [active] 334413003116 aspartate-rich region 2; other site 334413003117 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 334413003118 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 334413003119 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 334413003120 generic binding surface II; other site 334413003121 generic binding surface I; other site 334413003122 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 334413003123 putative RNA binding site [nucleotide binding]; other site 334413003124 Asp23 family; Region: Asp23; pfam03780 334413003125 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 334413003126 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 334413003127 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 334413003128 P loop; other site 334413003129 GTP binding site [chemical binding]; other site 334413003130 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 334413003131 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 334413003132 Walker A/P-loop; other site 334413003133 ATP binding site [chemical binding]; other site 334413003134 Q-loop/lid; other site 334413003135 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 334413003136 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 334413003137 ABC transporter signature motif; other site 334413003138 Walker B; other site 334413003139 D-loop; other site 334413003140 H-loop/switch region; other site 334413003141 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 334413003142 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 334413003143 FeS/SAM binding site; other site 334413003144 ribonuclease III; Reviewed; Region: rnc; PRK00102 334413003145 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 334413003146 dimerization interface [polypeptide binding]; other site 334413003147 active site 334413003148 metal binding site [ion binding]; metal-binding site 334413003149 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 334413003150 dsRNA binding site [nucleotide binding]; other site 334413003151 acyl carrier protein; Provisional; Region: acpP; PRK00982 334413003152 putative phosphate acyltransferase; Provisional; Region: PRK05331 334413003153 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 334413003154 propionate/acetate kinase; Provisional; Region: PRK12379 334413003155 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 334413003156 nucleotide binding site [chemical binding]; other site 334413003157 butyrate kinase; Provisional; Region: PRK03011 334413003158 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 334413003159 GTP-binding protein Der; Reviewed; Region: PRK00093 334413003160 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 334413003161 G1 box; other site 334413003162 GTP/Mg2+ binding site [chemical binding]; other site 334413003163 Switch I region; other site 334413003164 G2 box; other site 334413003165 Switch II region; other site 334413003166 G3 box; other site 334413003167 G4 box; other site 334413003168 G5 box; other site 334413003169 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 334413003170 G1 box; other site 334413003171 GTP/Mg2+ binding site [chemical binding]; other site 334413003172 Switch I region; other site 334413003173 G2 box; other site 334413003174 G3 box; other site 334413003175 Switch II region; other site 334413003176 G4 box; other site 334413003177 G5 box; other site 334413003178 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 334413003179 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 334413003180 dimer interface [polypeptide binding]; other site 334413003181 active site 334413003182 glycine-pyridoxal phosphate binding site [chemical binding]; other site 334413003183 folate binding site [chemical binding]; other site 334413003184 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 334413003185 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 334413003186 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 334413003187 putative ATP binding site [chemical binding]; other site 334413003188 putative substrate interface [chemical binding]; other site 334413003189 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 334413003190 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 334413003191 dimer interface [polypeptide binding]; other site 334413003192 anticodon binding site; other site 334413003193 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 334413003194 homodimer interface [polypeptide binding]; other site 334413003195 motif 1; other site 334413003196 active site 334413003197 motif 2; other site 334413003198 GAD domain; Region: GAD; pfam02938 334413003199 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 334413003200 motif 3; other site 334413003201 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 334413003202 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 334413003203 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 334413003204 TPR repeat; Region: TPR_11; pfam13414 334413003205 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 334413003206 binding surface 334413003207 TPR motif; other site 334413003208 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 334413003209 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 334413003210 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 334413003211 active site 334413003212 HIGH motif; other site 334413003213 KMSK motif region; other site 334413003214 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 334413003215 tRNA binding surface [nucleotide binding]; other site 334413003216 anticodon binding site; other site 334413003217 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 334413003218 MutS domain III; Region: MutS_III; pfam05192 334413003219 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413003220 Walker A/P-loop; other site 334413003221 ATP binding site [chemical binding]; other site 334413003222 Q-loop/lid; other site 334413003223 ABC transporter signature motif; other site 334413003224 Walker B; other site 334413003225 D-loop; other site 334413003226 H-loop/switch region; other site 334413003227 Smr domain; Region: Smr; pfam01713 334413003228 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 334413003229 Peptidase family U32; Region: Peptidase_U32; pfam01136 334413003230 Collagenase; Region: DUF3656; pfam12392 334413003231 Peptidase family U32; Region: Peptidase_U32; cl03113 334413003232 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 334413003233 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 334413003234 putative tRNA-binding site [nucleotide binding]; other site 334413003235 B3/4 domain; Region: B3_4; pfam03483 334413003236 tRNA synthetase B5 domain; Region: B5; pfam03484 334413003237 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 334413003238 dimer interface [polypeptide binding]; other site 334413003239 motif 1; other site 334413003240 motif 3; other site 334413003241 motif 2; other site 334413003242 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 334413003243 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 334413003244 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 334413003245 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 334413003246 dimer interface [polypeptide binding]; other site 334413003247 motif 1; other site 334413003248 active site 334413003249 motif 2; other site 334413003250 motif 3; other site 334413003251 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 334413003252 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 334413003253 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 334413003254 TrkA-N domain; Region: TrkA_N; pfam02254 334413003255 TrkA-C domain; Region: TrkA_C; pfam02080 334413003256 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 334413003257 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 334413003258 asparagine synthetase AsnA; Provisional; Region: PRK05425 334413003259 motif 1; other site 334413003260 dimer interface [polypeptide binding]; other site 334413003261 active site 334413003262 motif 2; other site 334413003263 motif 3; other site 334413003264 SpoVG; Region: SpoVG; cl00915 334413003265 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334413003266 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 334413003267 Uncharacterized conserved protein [Function unknown]; Region: COG0398 334413003268 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 334413003269 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334413003270 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 334413003271 putative ADP-binding pocket [chemical binding]; other site 334413003272 Hemerythrin-like domain; Region: Hr-like; cd12108 334413003273 Fe binding site [ion binding]; other site 334413003274 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 334413003275 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 334413003276 CoA binding domain; Region: CoA_binding; pfam02629 334413003277 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 334413003278 Carbon starvation protein CstA; Region: CstA; pfam02554 334413003279 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 334413003280 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 334413003281 homooctamer interface [polypeptide binding]; other site 334413003282 active site 334413003283 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 334413003284 catalytic center binding site [active] 334413003285 ATP binding site [chemical binding]; other site 334413003286 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 334413003287 dihydropteroate synthase; Region: DHPS; TIGR01496 334413003288 substrate binding pocket [chemical binding]; other site 334413003289 dimer interface [polypeptide binding]; other site 334413003290 inhibitor binding site; inhibition site 334413003291 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 334413003292 Zn2+ binding site [ion binding]; other site 334413003293 Mg2+ binding site [ion binding]; other site 334413003294 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 334413003295 homodecamer interface [polypeptide binding]; other site 334413003296 GTP cyclohydrolase I; Provisional; Region: PLN03044 334413003297 active site 334413003298 putative catalytic site residues [active] 334413003299 zinc binding site [ion binding]; other site 334413003300 GTP-CH-I/GFRP interaction surface; other site 334413003301 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 334413003302 G1 box; other site 334413003303 GTP/Mg2+ binding site [chemical binding]; other site 334413003304 G2 box; other site 334413003305 Switch I region; other site 334413003306 G3 box; other site 334413003307 Switch II region; other site 334413003308 G4 box; other site 334413003309 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 334413003310 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 334413003311 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 334413003312 ring oligomerisation interface [polypeptide binding]; other site 334413003313 ATP/Mg binding site [chemical binding]; other site 334413003314 stacking interactions; other site 334413003315 hinge regions; other site 334413003316 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 334413003317 oligomerisation interface [polypeptide binding]; other site 334413003318 mobile loop; other site 334413003319 roof hairpin; other site 334413003320 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 334413003321 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 334413003322 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 334413003323 minor groove reading motif; other site 334413003324 helix-hairpin-helix signature motif; other site 334413003325 substrate binding pocket [chemical binding]; other site 334413003326 active site 334413003327 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 334413003328 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 334413003329 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 334413003330 NAD(P) binding site [chemical binding]; other site 334413003331 glycyl-tRNA synthetase; Provisional; Region: PRK04173 334413003332 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 334413003333 motif 1; other site 334413003334 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 334413003335 active site 334413003336 motif 2; other site 334413003337 motif 3; other site 334413003338 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 334413003339 anticodon binding site; other site 334413003340 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 334413003341 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 334413003342 hypothetical protein; Validated; Region: PRK00110 334413003343 NAD synthetase; Provisional; Region: PRK13980 334413003344 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 334413003345 homodimer interface [polypeptide binding]; other site 334413003346 NAD binding pocket [chemical binding]; other site 334413003347 ATP binding pocket [chemical binding]; other site 334413003348 Mg binding site [ion binding]; other site 334413003349 active-site loop [active] 334413003350 Uncharacterized conserved protein [Function unknown]; Region: COG1739 334413003351 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 334413003352 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 334413003353 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 334413003354 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 334413003355 HflX GTPase family; Region: HflX; cd01878 334413003356 G1 box; other site 334413003357 GTP/Mg2+ binding site [chemical binding]; other site 334413003358 Switch I region; other site 334413003359 G2 box; other site 334413003360 G3 box; other site 334413003361 Switch II region; other site 334413003362 G4 box; other site 334413003363 G5 box; other site 334413003364 Transglycosylase; Region: Transgly; pfam00912 334413003365 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 334413003366 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334413003367 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 334413003368 dimer interface [polypeptide binding]; other site 334413003369 phosphorylation site [posttranslational modification] 334413003370 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 334413003371 ATP binding site [chemical binding]; other site 334413003372 Mg2+ binding site [ion binding]; other site 334413003373 G-X-G motif; other site 334413003374 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334413003375 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 334413003376 active site 334413003377 phosphorylation site [posttranslational modification] 334413003378 intermolecular recognition site; other site 334413003379 dimerization interface [polypeptide binding]; other site 334413003380 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 334413003381 DNA binding site [nucleotide binding] 334413003382 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 334413003383 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 334413003384 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 334413003385 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 334413003386 excinuclease ABC subunit B; Provisional; Region: PRK05298 334413003387 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 334413003388 ATP binding site [chemical binding]; other site 334413003389 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 334413003390 nucleotide binding region [chemical binding]; other site 334413003391 ATP-binding site [chemical binding]; other site 334413003392 Ultra-violet resistance protein B; Region: UvrB; pfam12344 334413003393 UvrB/uvrC motif; Region: UVR; pfam02151 334413003394 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 334413003395 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 334413003396 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413003397 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413003398 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413003399 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 334413003400 SurA N-terminal domain; Region: SurA_N_3; cl07813 334413003401 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 334413003402 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 334413003403 S1 domain; Region: S1_2; pfam13509 334413003404 S1 domain; Region: S1_2; pfam13509 334413003405 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 334413003406 RNA binding site [nucleotide binding]; other site 334413003407 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334413003408 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334413003409 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 334413003410 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 334413003411 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 334413003412 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 334413003413 ABC-ATPase subunit interface; other site 334413003414 dimer interface [polypeptide binding]; other site 334413003415 putative PBP binding regions; other site 334413003416 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334413003417 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 334413003418 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 334413003419 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 334413003420 intersubunit interface [polypeptide binding]; other site 334413003421 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334413003422 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 334413003423 dimer interface [polypeptide binding]; other site 334413003424 phosphorylation site [posttranslational modification] 334413003425 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 334413003426 ATP binding site [chemical binding]; other site 334413003427 Mg2+ binding site [ion binding]; other site 334413003428 G-X-G motif; other site 334413003429 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334413003430 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 334413003431 active site 334413003432 phosphorylation site [posttranslational modification] 334413003433 intermolecular recognition site; other site 334413003434 dimerization interface [polypeptide binding]; other site 334413003435 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 334413003436 DNA binding site [nucleotide binding] 334413003437 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334413003438 FtsX-like permease family; Region: FtsX; pfam02687 334413003439 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413003440 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 334413003441 Walker A/P-loop; other site 334413003442 ATP binding site [chemical binding]; other site 334413003443 Q-loop/lid; other site 334413003444 ABC transporter signature motif; other site 334413003445 Walker B; other site 334413003446 D-loop; other site 334413003447 H-loop/switch region; other site 334413003448 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 334413003449 FtsX-like permease family; Region: FtsX; pfam02687 334413003450 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 334413003451 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 334413003452 putative uracil binding site [chemical binding]; other site 334413003453 putative active site [active] 334413003454 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 334413003455 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413003456 Q-loop/lid; other site 334413003457 ABC transporter signature motif; other site 334413003458 Walker B; other site 334413003459 D-loop; other site 334413003460 H-loop/switch region; other site 334413003461 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413003462 Walker A/P-loop; other site 334413003463 ATP binding site [chemical binding]; other site 334413003464 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 334413003465 putative PBP binding regions; other site 334413003466 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 334413003467 Methyltransferase domain; Region: Methyltransf_31; pfam13847 334413003468 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 334413003469 S-adenosylmethionine binding site [chemical binding]; other site 334413003470 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 334413003471 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; cl00047 334413003472 ligand binding site [chemical binding]; other site 334413003473 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 334413003474 non-specific DNA interactions [nucleotide binding]; other site 334413003475 DNA binding site [nucleotide binding] 334413003476 sequence specific DNA binding site [nucleotide binding]; other site 334413003477 putative cAMP binding site [chemical binding]; other site 334413003478 Phage-related protein [Function unknown]; Region: COG4695; cl01923 334413003479 Helix-turn-helix domain; Region: HTH_28; pfam13518 334413003480 putative transposase OrfB; Reviewed; Region: PHA02517 334413003481 HTH-like domain; Region: HTH_21; pfam13276 334413003482 Integrase core domain; Region: rve; pfam00665 334413003483 Integrase core domain; Region: rve_2; pfam13333 334413003484 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 334413003485 FtsX-like permease family; Region: FtsX; pfam02687 334413003486 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 334413003487 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 334413003488 dimer interface [polypeptide binding]; other site 334413003489 putative tRNA-binding site [nucleotide binding]; other site 334413003490 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 334413003491 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 334413003492 Int/Topo IB signature motif; other site 334413003493 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 334413003494 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 334413003495 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 334413003496 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413003497 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413003498 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413003499 Walker A/P-loop; other site 334413003500 ATP binding site [chemical binding]; other site 334413003501 Q-loop/lid; other site 334413003502 ABC transporter signature motif; other site 334413003503 Walker B; other site 334413003504 D-loop; other site 334413003505 H-loop/switch region; other site 334413003506 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413003507 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413003508 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413003509 Walker A/P-loop; other site 334413003510 ATP binding site [chemical binding]; other site 334413003511 Q-loop/lid; other site 334413003512 ABC transporter signature motif; other site 334413003513 Walker B; other site 334413003514 D-loop; other site 334413003515 H-loop/switch region; other site 334413003516 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334413003517 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334413003518 Walker A/P-loop; other site 334413003519 ATP binding site [chemical binding]; other site 334413003520 Q-loop/lid; other site 334413003521 ABC transporter signature motif; other site 334413003522 Walker B; other site 334413003523 D-loop; other site 334413003524 H-loop/switch region; other site 334413003525 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413003526 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413003527 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 334413003528 Walker A/P-loop; other site 334413003529 Walker A/P-loop; other site 334413003530 ATP binding site [chemical binding]; other site 334413003531 ATP binding site [chemical binding]; other site 334413003532 Q-loop/lid; other site 334413003533 ABC transporter signature motif; other site 334413003534 Walker B; other site 334413003535 D-loop; other site 334413003536 H-loop/switch region; other site 334413003537 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 334413003538 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 334413003539 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334413003540 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334413003541 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 334413003542 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334413003543 FtsX-like permease family; Region: FtsX; pfam02687 334413003544 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334413003545 FtsX-like permease family; Region: FtsX; pfam02687 334413003546 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334413003547 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334413003548 Walker A/P-loop; other site 334413003549 ATP binding site [chemical binding]; other site 334413003550 Q-loop/lid; other site 334413003551 ABC transporter signature motif; other site 334413003552 Walker B; other site 334413003553 D-loop; other site 334413003554 H-loop/switch region; other site 334413003555 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334413003556 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 334413003557 dimer interface [polypeptide binding]; other site 334413003558 phosphorylation site [posttranslational modification] 334413003559 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 334413003560 ATP binding site [chemical binding]; other site 334413003561 Mg2+ binding site [ion binding]; other site 334413003562 G-X-G motif; other site 334413003563 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334413003564 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 334413003565 active site 334413003566 phosphorylation site [posttranslational modification] 334413003567 intermolecular recognition site; other site 334413003568 dimerization interface [polypeptide binding]; other site 334413003569 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 334413003570 DNA binding site [nucleotide binding] 334413003571 Family description; Region: UvrD_C_2; pfam13538 334413003572 AAA ATPase domain; Region: AAA_15; pfam13175 334413003573 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413003574 Walker A/P-loop; other site 334413003575 ATP binding site [chemical binding]; other site 334413003576 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 334413003577 putative active site [active] 334413003578 putative metal-binding site [ion binding]; other site 334413003579 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 334413003580 non-specific DNA binding site [nucleotide binding]; other site 334413003581 salt bridge; other site 334413003582 sequence-specific DNA binding site [nucleotide binding]; other site 334413003583 Methyltransferase domain; Region: Methyltransf_26; pfam13659 334413003584 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 334413003585 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 334413003586 DEAD-like helicases superfamily; Region: DEXDc; smart00487 334413003587 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 334413003588 helicase superfamily c-terminal domain; Region: HELICc; smart00490 334413003589 nucleotide binding region [chemical binding]; other site 334413003590 ATP-binding site [chemical binding]; other site 334413003591 AAA domain; Region: AAA_13; pfam13166 334413003592 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 334413003593 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 334413003594 cofactor binding site; other site 334413003595 DNA binding site [nucleotide binding] 334413003596 substrate interaction site [chemical binding]; other site 334413003597 DNA topoisomerase III; Provisional; Region: PRK07726 334413003598 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 334413003599 active site 334413003600 putative interdomain interaction site [polypeptide binding]; other site 334413003601 putative metal-binding site [ion binding]; other site 334413003602 putative nucleotide binding site [chemical binding]; other site 334413003603 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 334413003604 domain I; other site 334413003605 DNA binding groove [nucleotide binding] 334413003606 phosphate binding site [ion binding]; other site 334413003607 domain II; other site 334413003608 domain III; other site 334413003609 nucleotide binding site [chemical binding]; other site 334413003610 catalytic site [active] 334413003611 domain IV; other site 334413003612 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 334413003613 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 334413003614 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 334413003615 linker region; other site 334413003616 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 334413003617 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 334413003618 NlpC/P60 family; Region: NLPC_P60; pfam00877 334413003619 AAA-like domain; Region: AAA_10; pfam12846 334413003620 Domain of unknown function DUF87; Region: DUF87; pfam01935 334413003621 PrgI family protein; Region: PrgI; pfam12666 334413003622 Maff2 family; Region: Maff2; pfam12750 334413003623 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 334413003624 generic binding surface II; other site 334413003625 generic binding surface I; other site 334413003626 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 334413003627 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 334413003628 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 334413003629 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 334413003630 ORF6N domain; Region: ORF6N; pfam10543 334413003631 MobA/MobL family; Region: MobA_MobL; pfam03389 334413003632 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 334413003633 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 334413003634 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 334413003635 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 334413003636 G1 box; other site 334413003637 GTP/Mg2+ binding site [chemical binding]; other site 334413003638 Switch I region; other site 334413003639 G2 box; other site 334413003640 G3 box; other site 334413003641 Switch II region; other site 334413003642 G4 box; other site 334413003643 G5 box; other site 334413003644 Nucleoside recognition; Region: Gate; pfam07670 334413003645 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 334413003646 Nucleoside recognition; Region: Gate; pfam07670 334413003647 FeoA domain; Region: FeoA; pfam04023 334413003648 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413003649 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413003650 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413003651 Walker A/P-loop; other site 334413003652 ATP binding site [chemical binding]; other site 334413003653 Q-loop/lid; other site 334413003654 ABC transporter signature motif; other site 334413003655 Walker B; other site 334413003656 D-loop; other site 334413003657 H-loop/switch region; other site 334413003658 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413003659 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413003660 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413003661 Walker A/P-loop; other site 334413003662 ATP binding site [chemical binding]; other site 334413003663 Q-loop/lid; other site 334413003664 ABC transporter signature motif; other site 334413003665 Walker B; other site 334413003666 D-loop; other site 334413003667 H-loop/switch region; other site 334413003668 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 334413003669 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334413003670 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 334413003671 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 334413003672 putative catalytic residues [active] 334413003673 catalytic nucleophile [active] 334413003674 Recombinase; Region: Recombinase; pfam07508 334413003675 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 334413003676 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 334413003677 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 334413003678 Walker A motif; other site 334413003679 ATP binding site [chemical binding]; other site 334413003680 Prophage antirepressor [Transcription]; Region: COG3617 334413003681 BRO family, N-terminal domain; Region: Bro-N; smart01040 334413003682 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 334413003683 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 334413003684 hypothetical protein; Validated; Region: PRK08116 334413003685 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 334413003686 Walker A motif; other site 334413003687 ATP binding site [chemical binding]; other site 334413003688 Walker B motif; other site 334413003689 arginine finger; other site 334413003690 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 334413003691 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 334413003692 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 334413003693 dimer interface [polypeptide binding]; other site 334413003694 putative anticodon binding site; other site 334413003695 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 334413003696 motif 1; other site 334413003697 active site 334413003698 motif 2; other site 334413003699 motif 3; other site 334413003700 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 334413003701 dimer interface [polypeptide binding]; other site 334413003702 putative tRNA-binding site [nucleotide binding]; other site 334413003703 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 334413003704 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 334413003705 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 334413003706 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 334413003707 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 334413003708 FMN binding site [chemical binding]; other site 334413003709 active site 334413003710 catalytic residues [active] 334413003711 substrate binding site [chemical binding]; other site 334413003712 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 334413003713 nucleotide binding site [chemical binding]; other site 334413003714 CTP synthetase; Validated; Region: pyrG; PRK05380 334413003715 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 334413003716 Catalytic site [active] 334413003717 active site 334413003718 UTP binding site [chemical binding]; other site 334413003719 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 334413003720 active site 334413003721 putative oxyanion hole; other site 334413003722 catalytic triad [active] 334413003723 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 334413003724 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 334413003725 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 334413003726 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 334413003727 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 334413003728 Walker A motif; other site 334413003729 ATP binding site [chemical binding]; other site 334413003730 Walker B motif; other site 334413003731 arginine finger; other site 334413003732 Peptidase family M41; Region: Peptidase_M41; pfam01434 334413003733 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334413003734 active site 334413003735 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 334413003736 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 334413003737 Ligand Binding Site [chemical binding]; other site 334413003738 TilS substrate C-terminal domain; Region: TilS_C; smart00977 334413003739 hypothetical protein; Provisional; Region: PRK08582 334413003740 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 334413003741 RNA binding site [nucleotide binding]; other site 334413003742 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 334413003743 Septum formation initiator; Region: DivIC; pfam04977 334413003744 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 334413003745 RNA binding surface [nucleotide binding]; other site 334413003746 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 334413003747 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 334413003748 motif II; other site 334413003749 pyruvate kinase; Provisional; Region: PRK06354 334413003750 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 334413003751 domain interfaces; other site 334413003752 active site 334413003753 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 334413003754 6-phosphofructokinase; Provisional; Region: PRK03202 334413003755 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 334413003756 active site 334413003757 ADP/pyrophosphate binding site [chemical binding]; other site 334413003758 dimerization interface [polypeptide binding]; other site 334413003759 allosteric effector site; other site 334413003760 fructose-1,6-bisphosphate binding site; other site 334413003761 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 334413003762 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 334413003763 active site 334413003764 PHP Thumb interface [polypeptide binding]; other site 334413003765 metal binding site [ion binding]; metal-binding site 334413003766 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 334413003767 generic binding surface II; other site 334413003768 generic binding surface I; other site 334413003769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 334413003770 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 334413003771 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 334413003772 active site 334413003773 Ap6A binding site [chemical binding]; other site 334413003774 nudix motif; other site 334413003775 metal binding site [ion binding]; metal-binding site 334413003776 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 334413003777 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 334413003778 Protein of unknown function (DUF1576); Region: DUF1576; pfam07613 334413003779 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 334413003780 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 334413003781 TM-ABC transporter signature motif; other site 334413003782 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 334413003783 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 334413003784 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 334413003785 TM-ABC transporter signature motif; other site 334413003786 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 334413003787 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 334413003788 Walker A/P-loop; other site 334413003789 ATP binding site [chemical binding]; other site 334413003790 Q-loop/lid; other site 334413003791 ABC transporter signature motif; other site 334413003792 Walker B; other site 334413003793 D-loop; other site 334413003794 H-loop/switch region; other site 334413003795 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 334413003796 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 334413003797 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 334413003798 ligand binding site [chemical binding]; other site 334413003799 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 334413003800 xanthine permease; Region: pbuX; TIGR03173 334413003801 carbamate kinase; Reviewed; Region: PRK12686 334413003802 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 334413003803 putative substrate binding site [chemical binding]; other site 334413003804 nucleotide binding site [chemical binding]; other site 334413003805 nucleotide binding site [chemical binding]; other site 334413003806 homodimer interface [polypeptide binding]; other site 334413003807 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 334413003808 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 334413003809 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 334413003810 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 334413003811 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 334413003812 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 334413003813 dimerization domain swap beta strand [polypeptide binding]; other site 334413003814 regulatory protein interface [polypeptide binding]; other site 334413003815 active site 334413003816 regulatory phosphorylation site [posttranslational modification]; other site 334413003817 Transcriptional regulators [Transcription]; Region: PurR; COG1609 334413003818 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 334413003819 DNA binding site [nucleotide binding] 334413003820 domain linker motif; other site 334413003821 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 334413003822 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 334413003823 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 334413003824 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 334413003825 YtxH-like protein; Region: YtxH; pfam12732 334413003826 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 334413003827 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 334413003828 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 334413003829 active site 334413003830 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 334413003831 ATP-NAD kinase; Region: NAD_kinase; pfam01513 334413003832 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 334413003833 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 334413003834 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 334413003835 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 334413003836 phosphopeptide binding site; other site 334413003837 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334413003838 active site 334413003839 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 334413003840 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 334413003841 active site 334413003842 substrate binding site [chemical binding]; other site 334413003843 metal binding site [ion binding]; metal-binding site 334413003844 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 334413003845 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 334413003846 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 334413003847 Ca binding site [ion binding]; other site 334413003848 active site 334413003849 catalytic site [active] 334413003850 Carbohydrate phosphorylase; Region: Phosphorylase; pfam00343 334413003851 Carbohydrate phosphorylase; Region: Phosphorylase; pfam00343 334413003852 glycogen synthase; Provisional; Region: glgA; PRK00654 334413003853 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 334413003854 ADP-binding pocket [chemical binding]; other site 334413003855 homodimer interface [polypeptide binding]; other site 334413003856 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 334413003857 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 334413003858 active site 334413003859 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 334413003860 dimer interface [polypeptide binding]; other site 334413003861 N-terminal domain interface [polypeptide binding]; other site 334413003862 sulfate 1 binding site; other site 334413003863 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 334413003864 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 334413003865 ligand binding site; other site 334413003866 oligomer interface; other site 334413003867 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 334413003868 dimer interface [polypeptide binding]; other site 334413003869 N-terminal domain interface [polypeptide binding]; other site 334413003870 sulfate 1 binding site; other site 334413003871 glycogen branching enzyme; Provisional; Region: PRK12313 334413003872 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 334413003873 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 334413003874 active site 334413003875 catalytic site [active] 334413003876 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 334413003877 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 334413003878 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 334413003879 Beta-Casp domain; Region: Beta-Casp; smart01027 334413003880 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 334413003881 Trp repressor protein; Region: Trp_repressor; cl17266 334413003882 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 334413003883 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 334413003884 G1 box; other site 334413003885 putative GEF interaction site [polypeptide binding]; other site 334413003886 GTP/Mg2+ binding site [chemical binding]; other site 334413003887 Switch I region; other site 334413003888 G2 box; other site 334413003889 G3 box; other site 334413003890 Switch II region; other site 334413003891 G4 box; other site 334413003892 G5 box; other site 334413003893 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 334413003894 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 334413003895 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 334413003896 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 334413003897 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 334413003898 ATP binding site [chemical binding]; other site 334413003899 Mg2+ binding site [ion binding]; other site 334413003900 G-X-G motif; other site 334413003901 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 334413003902 Rubredoxin; Region: Rubredoxin; pfam00301 334413003903 iron binding site [ion binding]; other site 334413003904 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 334413003905 G1 box; other site 334413003906 GTP/Mg2+ binding site [chemical binding]; other site 334413003907 Switch I region; other site 334413003908 G2 box; other site 334413003909 G3 box; other site 334413003910 Switch II region; other site 334413003911 G4 box; other site 334413003912 G5 box; other site 334413003913 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 334413003914 Ferritin-like domain; Region: Ferritin; pfam00210 334413003915 ferroxidase diiron center [ion binding]; other site 334413003916 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 334413003917 Active site serine [active] 334413003918 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 334413003919 MarR family; Region: MarR; pfam01047 334413003920 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 334413003921 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 334413003922 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334413003923 catalytic residue [active] 334413003924 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 334413003925 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 334413003926 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 334413003927 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 334413003928 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 334413003929 glutamine binding [chemical binding]; other site 334413003930 catalytic triad [active] 334413003931 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 334413003932 FtsX-like permease family; Region: FtsX; pfam02687 334413003933 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334413003934 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334413003935 Walker A/P-loop; other site 334413003936 ATP binding site [chemical binding]; other site 334413003937 Q-loop/lid; other site 334413003938 ABC transporter signature motif; other site 334413003939 Walker B; other site 334413003940 D-loop; other site 334413003941 H-loop/switch region; other site 334413003942 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 334413003943 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 334413003944 HlyD family secretion protein; Region: HlyD_3; pfam13437 334413003945 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 334413003946 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 334413003947 metal binding site [ion binding]; metal-binding site 334413003948 dimer interface [polypeptide binding]; other site 334413003949 Yqey-like protein; Region: YqeY; cl17540 334413003950 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 334413003951 active site 334413003952 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 334413003953 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 334413003954 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 334413003955 active site 334413003956 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 334413003957 putative MPT binding site; other site 334413003958 FtsX-like permease family; Region: FtsX; pfam02687 334413003959 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334413003960 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334413003961 Walker A/P-loop; other site 334413003962 ATP binding site [chemical binding]; other site 334413003963 Q-loop/lid; other site 334413003964 ABC transporter signature motif; other site 334413003965 Walker B; other site 334413003966 D-loop; other site 334413003967 H-loop/switch region; other site 334413003968 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334413003969 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 334413003970 ATP binding site [chemical binding]; other site 334413003971 Mg2+ binding site [ion binding]; other site 334413003972 G-X-G motif; other site 334413003973 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334413003974 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 334413003975 active site 334413003976 phosphorylation site [posttranslational modification] 334413003977 intermolecular recognition site; other site 334413003978 dimerization interface [polypeptide binding]; other site 334413003979 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 334413003980 DNA binding site [nucleotide binding] 334413003981 uracil transporter; Provisional; Region: PRK10720 334413003982 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 334413003983 metal binding site 2 [ion binding]; metal-binding site 334413003984 putative DNA binding helix; other site 334413003985 metal binding site 1 [ion binding]; metal-binding site 334413003986 dimer interface [polypeptide binding]; other site 334413003987 structural Zn2+ binding site [ion binding]; other site 334413003988 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334413003989 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 334413003990 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334413003991 Protein of unknown function (DUF328); Region: DUF328; pfam03883 334413003992 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413003993 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413003994 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413003995 Walker A/P-loop; other site 334413003996 ATP binding site [chemical binding]; other site 334413003997 Q-loop/lid; other site 334413003998 ABC transporter signature motif; other site 334413003999 Walker B; other site 334413004000 D-loop; other site 334413004001 H-loop/switch region; other site 334413004002 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413004003 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 334413004004 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413004005 Walker A/P-loop; other site 334413004006 ATP binding site [chemical binding]; other site 334413004007 Q-loop/lid; other site 334413004008 ABC transporter signature motif; other site 334413004009 Walker B; other site 334413004010 D-loop; other site 334413004011 H-loop/switch region; other site 334413004012 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 334413004013 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 334413004014 V-type ATP synthase subunit B; Provisional; Region: PRK04196 334413004015 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 334413004016 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 334413004017 Walker A motif homologous position; other site 334413004018 Walker B motif; other site 334413004019 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 334413004020 V-type ATP synthase subunit A; Provisional; Region: PRK04192 334413004021 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 334413004022 V/A-type ATP synthase catalytic subunit A. 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_A; cd01134 334413004023 Walker A motif/ATP binding site; other site 334413004024 Walker B motif; other site 334413004025 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 334413004026 V-type ATP synthase subunit F; Provisional; Region: PRK01395 334413004027 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 334413004028 V-type ATP synthase subunit C; Provisional; Region: PRK01198 334413004029 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 334413004030 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 334413004031 V-type ATP synthase subunit K; Validated; Region: PRK06558 334413004032 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 334413004033 V-type ATP synthase subunit I; Validated; Region: PRK05771 334413004034 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 334413004035 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334413004036 active site 334413004037 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 334413004038 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 334413004039 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 334413004040 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 334413004041 putative substrate binding pocket [chemical binding]; other site 334413004042 dimer interface [polypeptide binding]; other site 334413004043 phosphate binding site [ion binding]; other site 334413004044 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 334413004045 shikimate kinase; Reviewed; Region: aroK; PRK00131 334413004046 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 334413004047 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 334413004048 active site 334413004049 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 334413004050 FAD binding domain; Region: FAD_binding_4; pfam01565 334413004051 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 334413004052 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 334413004053 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334413004054 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334413004055 peptide chain release factor 1; Validated; Region: prfA; PRK00591 334413004056 This domain is found in peptide chain release factors; Region: PCRF; smart00937 334413004057 RF-1 domain; Region: RF-1; pfam00472 334413004058 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 334413004059 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 334413004060 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 334413004061 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 334413004062 transcription termination factor Rho; Provisional; Region: rho; PRK09376 334413004063 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 334413004064 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 334413004065 RNA binding site [nucleotide binding]; other site 334413004066 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 334413004067 Walker A motif; other site 334413004068 ATP binding site [chemical binding]; other site 334413004069 Walker B motif; other site 334413004070 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 334413004071 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 334413004072 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 334413004073 catalytic residues [active] 334413004074 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 334413004075 Uncharacterized conserved protein [Function unknown]; Region: COG2966 334413004076 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 334413004077 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 334413004078 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 334413004079 FMN binding site [chemical binding]; other site 334413004080 dimer interface [polypeptide binding]; other site 334413004081 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 334413004082 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 334413004083 catalytic loop [active] 334413004084 iron binding site [ion binding]; other site 334413004085 Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P)H...; Region: phenol_2-monooxygenase_like; cd06211 334413004086 FAD binding pocket [chemical binding]; other site 334413004087 FAD binding motif [chemical binding]; other site 334413004088 phosphate binding motif [ion binding]; other site 334413004089 beta-alpha-beta structure motif; other site 334413004090 NAD binding pocket [chemical binding]; other site 334413004091 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 334413004092 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 334413004093 FMN-binding domain; Region: FMN_bind; cl01081 334413004094 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 334413004095 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 334413004096 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 334413004097 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 334413004098 active site 334413004099 HIGH motif; other site 334413004100 nucleotide binding site [chemical binding]; other site 334413004101 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 334413004102 active site 334413004103 KMSKS motif; other site 334413004104 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 334413004105 tRNA binding surface [nucleotide binding]; other site 334413004106 anticodon binding site; other site 334413004107 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413004108 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413004109 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413004110 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 334413004111 putative active site [active] 334413004112 CAMP factor (Cfa); Region: CAMP_factor; pfam07373 334413004113 CAMP factor (Cfa); Region: CAMP_factor; pfam07373 334413004114 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 334413004115 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 334413004116 Cysteine protease [Posttranslational modification, protein turnover, chaperones]; Region: COG4870 334413004117 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 334413004118 active site 334413004119 Cysteine protease [Posttranslational modification, protein turnover, chaperones]; Region: COG4870 334413004120 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 334413004121 active site 334413004122 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 334413004123 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 334413004124 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 334413004125 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 334413004126 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 334413004127 Walker A/P-loop; other site 334413004128 ATP binding site [chemical binding]; other site 334413004129 Q-loop/lid; other site 334413004130 ABC transporter signature motif; other site 334413004131 Walker B; other site 334413004132 D-loop; other site 334413004133 H-loop/switch region; other site 334413004134 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 334413004135 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 334413004136 substrate binding pocket [chemical binding]; other site 334413004137 membrane-bound complex binding site; other site 334413004138 hinge residues; other site 334413004139 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 334413004140 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 334413004141 dimer interface [polypeptide binding]; other site 334413004142 conserved gate region; other site 334413004143 putative PBP binding loops; other site 334413004144 ABC-ATPase subunit interface; other site 334413004145 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 334413004146 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 334413004147 dimerization interface 3.5A [polypeptide binding]; other site 334413004148 active site 334413004149 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 334413004150 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 334413004151 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334413004152 Walker A/P-loop; other site 334413004153 ATP binding site [chemical binding]; other site 334413004154 Q-loop/lid; other site 334413004155 ABC transporter signature motif; other site 334413004156 Walker B; other site 334413004157 D-loop; other site 334413004158 H-loop/switch region; other site 334413004159 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 334413004160 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334413004161 Walker A/P-loop; other site 334413004162 ATP binding site [chemical binding]; other site 334413004163 Q-loop/lid; other site 334413004164 ABC transporter signature motif; other site 334413004165 Walker B; other site 334413004166 D-loop; other site 334413004167 H-loop/switch region; other site 334413004168 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 334413004169 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 334413004170 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 334413004171 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 334413004172 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 334413004173 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 334413004174 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 334413004175 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 334413004176 G-loop; other site 334413004177 DNA binding site [nucleotide binding] 334413004178 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 334413004179 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 334413004180 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 334413004181 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 334413004182 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 334413004183 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 334413004184 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 334413004185 RPB10 interaction site [polypeptide binding]; other site 334413004186 RPB1 interaction site [polypeptide binding]; other site 334413004187 RPB11 interaction site [polypeptide binding]; other site 334413004188 RPB3 interaction site [polypeptide binding]; other site 334413004189 RPB12 interaction site [polypeptide binding]; other site 334413004190 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 334413004191 active site 1 [active] 334413004192 active site 2 [active] 334413004193 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 334413004194 AAA-like domain; Region: AAA_10; pfam12846 334413004195 Domain of unknown function DUF87; Region: DUF87; pfam01935 334413004196 NurA domain; Region: NurA; pfam09376 334413004197 Predicted methyltransferases [General function prediction only]; Region: COG0313 334413004198 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 334413004199 putative SAM binding site [chemical binding]; other site 334413004200 putative homodimer interface [polypeptide binding]; other site 334413004201 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 334413004202 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 334413004203 S-adenosylmethionine binding site [chemical binding]; other site 334413004204 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 334413004205 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 334413004206 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 334413004207 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 334413004208 DNA polymerase III subunit delta'; Validated; Region: PRK08485 334413004209 Protein of unknown function (DUF970); Region: DUF970; cl17525 334413004210 Protein of unknown function (DUF970); Region: DUF970; pfam06153 334413004211 thymidylate kinase; Validated; Region: tmk; PRK00698 334413004212 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 334413004213 TMP-binding site; other site 334413004214 ATP-binding site [chemical binding]; other site 334413004215 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 334413004216 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 334413004217 5S rRNA interface [nucleotide binding]; other site 334413004218 CTC domain interface [polypeptide binding]; other site 334413004219 L16 interface [polypeptide binding]; other site 334413004220 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 334413004221 dimer interface [polypeptide binding]; other site 334413004222 catalytic triad [active] 334413004223 peroxidatic and resolving cysteines [active] 334413004224 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 334413004225 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334413004226 Soluble P-type ATPase [General function prediction only]; Region: COG4087 334413004227 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 334413004228 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 334413004229 catalytic residues [active] 334413004230 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 334413004231 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 334413004232 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 334413004233 NAD(P) binding site [chemical binding]; other site 334413004234 homodimer interface [polypeptide binding]; other site 334413004235 substrate binding site [chemical binding]; other site 334413004236 active site 334413004237 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 334413004238 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 334413004239 homodimer interface [polypeptide binding]; other site 334413004240 substrate-cofactor binding pocket; other site 334413004241 catalytic residue [active] 334413004242 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 334413004243 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 334413004244 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 334413004245 dimer interface [polypeptide binding]; other site 334413004246 ssDNA binding site [nucleotide binding]; other site 334413004247 tetramer (dimer of dimers) interface [polypeptide binding]; other site 334413004248 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 334413004249 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 334413004250 BioY family; Region: BioY; pfam02632 334413004251 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 334413004252 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 334413004253 homotetramer interface [polypeptide binding]; other site 334413004254 FMN binding site [chemical binding]; other site 334413004255 homodimer contacts [polypeptide binding]; other site 334413004256 putative active site [active] 334413004257 putative substrate binding site [chemical binding]; other site 334413004258 Transcriptional regulator [Transcription]; Region: LytR; COG1316 334413004259 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 334413004260 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 334413004261 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 334413004262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 334413004263 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 334413004264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 334413004265 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 334413004266 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 334413004267 FeS/SAM binding site; other site 334413004268 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 334413004269 nucleoside/Zn binding site; other site 334413004270 dimer interface [polypeptide binding]; other site 334413004271 catalytic motif [active] 334413004272 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 334413004273 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 334413004274 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334413004275 active site 334413004276 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 334413004277 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 334413004278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334413004279 homodimer interface [polypeptide binding]; other site 334413004280 catalytic residue [active] 334413004281 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 334413004282 molybdopterin cofactor binding site; other site 334413004283 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 334413004284 molybdopterin cofactor binding site; other site 334413004285 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 334413004286 catalytic loop [active] 334413004287 iron binding site [ion binding]; other site 334413004288 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 334413004289 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 334413004290 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 334413004291 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 334413004292 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 334413004293 Uncharacterized conserved protein [Function unknown]; Region: COG1633 334413004294 diiron binding motif [ion binding]; other site 334413004295 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 334413004296 catalytic loop [active] 334413004297 iron binding site [ion binding]; other site 334413004298 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 334413004299 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 334413004300 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 334413004301 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 334413004302 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 334413004303 dimer interface [polypeptide binding]; other site 334413004304 [2Fe-2S] cluster binding site [ion binding]; other site 334413004305 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 334413004306 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 334413004307 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 334413004308 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 334413004309 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 334413004310 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 334413004311 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 334413004312 putative dimer interface [polypeptide binding]; other site 334413004313 [2Fe-2S] cluster binding site [ion binding]; other site 334413004314 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 334413004315 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 334413004316 G1 box; other site 334413004317 putative GEF interaction site [polypeptide binding]; other site 334413004318 GTP/Mg2+ binding site [chemical binding]; other site 334413004319 Switch I region; other site 334413004320 G2 box; other site 334413004321 G3 box; other site 334413004322 Switch II region; other site 334413004323 G4 box; other site 334413004324 G5 box; other site 334413004325 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 334413004326 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 334413004327 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 334413004328 S-adenosylmethionine synthetase; Validated; Region: PRK05250 334413004329 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 334413004330 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 334413004331 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 334413004332 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 334413004333 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 334413004334 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413004335 Walker A/P-loop; other site 334413004336 ATP binding site [chemical binding]; other site 334413004337 Q-loop/lid; other site 334413004338 ABC transporter signature motif; other site 334413004339 Walker B; other site 334413004340 D-loop; other site 334413004341 H-loop/switch region; other site 334413004342 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 334413004343 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 334413004344 dimer interface [polypeptide binding]; other site 334413004345 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 334413004346 active site 334413004347 metal binding site [ion binding]; metal-binding site 334413004348 glutathione binding site [chemical binding]; other site 334413004349 oligoendopeptidase F; Region: pepF; TIGR00181 334413004350 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 334413004351 active site 334413004352 Zn binding site [ion binding]; other site 334413004353 ATP synthase subunit D; Region: ATP-synt_D; pfam01813 334413004354 V-type ATP synthase subunit B; Provisional; Region: PRK04196 334413004355 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 334413004356 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 334413004357 Walker A motif homologous position; other site 334413004358 Walker B motif; other site 334413004359 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 334413004360 V-type ATP synthase subunit A; Provisional; Region: PRK04192 334413004361 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 334413004362 V/A-type ATP synthase catalytic subunit A. 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_A; cd01134 334413004363 Walker A motif/ATP binding site; other site 334413004364 Walker B motif; other site 334413004365 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 334413004366 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 334413004367 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; pfam01990 334413004368 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 334413004369 V-type ATP synthase subunit I; Validated; Region: PRK05771 334413004370 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 334413004371 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 334413004372 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 334413004373 HSP70 interaction site [polypeptide binding]; other site 334413004374 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 334413004375 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 334413004376 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 334413004377 metal ion-dependent adhesion site (MIDAS); other site 334413004378 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 334413004379 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 334413004380 FeS/SAM binding site; other site 334413004381 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 334413004382 ATP cone domain; Region: ATP-cone; pfam03477 334413004383 Class III ribonucleotide reductase; Region: RNR_III; cd01675 334413004384 effector binding site; other site 334413004385 active site 334413004386 Zn binding site [ion binding]; other site 334413004387 glycine loop; other site 334413004388 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 334413004389 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 334413004390 NodB motif; other site 334413004391 active site 334413004392 catalytic site [active] 334413004393 Zn binding site [ion binding]; other site 334413004394 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 334413004395 C-terminal peptidase (prc); Region: prc; TIGR00225 334413004396 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 334413004397 protein binding site [polypeptide binding]; other site 334413004398 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 334413004399 Catalytic dyad [active] 334413004400 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 334413004401 Active site serine [active] 334413004402 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 334413004403 Active site serine [active] 334413004404 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 334413004405 internal virion protein C; Region: PHA00431 334413004406 Peptidase family M23; Region: Peptidase_M23; pfam01551 334413004407 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 334413004408 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 334413004409 FtsX-like permease family; Region: FtsX; pfam02687 334413004410 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 334413004411 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413004412 Walker A/P-loop; other site 334413004413 ATP binding site [chemical binding]; other site 334413004414 Q-loop/lid; other site 334413004415 ABC transporter signature motif; other site 334413004416 Walker B; other site 334413004417 D-loop; other site 334413004418 H-loop/switch region; other site 334413004419 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 334413004420 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 334413004421 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334413004422 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334413004423 Walker A/P-loop; other site 334413004424 ATP binding site [chemical binding]; other site 334413004425 Q-loop/lid; other site 334413004426 ABC transporter signature motif; other site 334413004427 Walker B; other site 334413004428 D-loop; other site 334413004429 H-loop/switch region; other site 334413004430 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 334413004431 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 334413004432 Active site serine [active] 334413004433 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 334413004434 Active site serine [active] 334413004435 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 334413004436 Active site serine [active] 334413004437 PemK-like protein; Region: PemK; pfam02452 334413004438 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 334413004439 alanine racemase; Reviewed; Region: alr; PRK00053 334413004440 active site 334413004441 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 334413004442 dimer interface [polypeptide binding]; other site 334413004443 substrate binding site [chemical binding]; other site 334413004444 catalytic residues [active] 334413004445 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 334413004446 putative substrate binding site [chemical binding]; other site 334413004447 putative ATP binding site [chemical binding]; other site 334413004448 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 334413004449 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 334413004450 metal binding triad [ion binding]; metal-binding site 334413004451 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 334413004452 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 334413004453 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 334413004454 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 334413004455 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 334413004456 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 334413004457 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334413004458 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413004459 Walker A/P-loop; other site 334413004460 ATP binding site [chemical binding]; other site 334413004461 Q-loop/lid; other site 334413004462 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334413004463 ABC transporter; Region: ABC_tran_2; pfam12848 334413004464 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334413004465 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 334413004466 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334413004467 active site 334413004468 metal binding site [ion binding]; metal-binding site 334413004469 homotetramer interface [polypeptide binding]; other site 334413004470 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 334413004471 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 334413004472 Walker A motif; other site 334413004473 ATP binding site [chemical binding]; other site 334413004474 Walker B motif; other site 334413004475 arginine finger; other site 334413004476 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 334413004477 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 334413004478 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 334413004479 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 334413004480 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 334413004481 Walker A motif; other site 334413004482 ATP binding site [chemical binding]; other site 334413004483 Walker B motif; other site 334413004484 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 334413004485 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 334413004486 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 334413004487 oligomer interface [polypeptide binding]; other site 334413004488 active site residues [active] 334413004489 trigger factor; Provisional; Region: tig; PRK01490 334413004490 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 334413004491 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 334413004492 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413004493 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 334413004494 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334413004495 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 334413004496 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 334413004497 G1 box; other site 334413004498 GTP/Mg2+ binding site [chemical binding]; other site 334413004499 Switch I region; other site 334413004500 G2 box; other site 334413004501 G3 box; other site 334413004502 Switch II region; other site 334413004503 G4 box; other site 334413004504 G5 box; other site 334413004505 Nucleoside recognition; Region: Gate; pfam07670 334413004506 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 334413004507 Nucleoside recognition; Region: Gate; pfam07670 334413004508 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 334413004509 FeoA domain; Region: FeoA; pfam04023 334413004510 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 334413004511 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 334413004512 glutaminase active site [active] 334413004513 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 334413004514 dimer interface [polypeptide binding]; other site 334413004515 active site 334413004516 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 334413004517 dimer interface [polypeptide binding]; other site 334413004518 active site 334413004519 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 334413004520 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334413004521 Coenzyme A binding pocket [chemical binding]; other site 334413004522 UGMP family protein; Validated; Region: PRK09604 334413004523 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 334413004524 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 334413004525 Glycoprotease family; Region: Peptidase_M22; pfam00814 334413004526 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 334413004527 Predicted membrane protein [Function unknown]; Region: COG3601 334413004528 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 334413004529 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 334413004530 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 334413004531 active site 334413004532 metal binding site [ion binding]; metal-binding site 334413004533 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 334413004534 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 334413004535 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 334413004536 active site 334413004537 substrate binding site [chemical binding]; other site 334413004538 metal binding site [ion binding]; metal-binding site 334413004539 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 334413004540 YbbR-like protein; Region: YbbR; pfam07949 334413004541 YbbR-like protein; Region: YbbR; pfam07949 334413004542 TIGR00159 family protein; Region: TIGR00159 334413004543 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 334413004544 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 334413004545 regulatory protein interface [polypeptide binding]; other site 334413004546 active site 334413004547 regulatory phosphorylation site [posttranslational modification]; other site 334413004548 Rubrerythrin [Energy production and conversion]; Region: COG1592 334413004549 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 334413004550 binuclear metal center [ion binding]; other site 334413004551 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 334413004552 iron binding site [ion binding]; other site 334413004553 rod shape-determining protein MreB; Provisional; Region: PRK13930 334413004554 MreB and similar proteins; Region: MreB_like; cd10225 334413004555 nucleotide binding site [chemical binding]; other site 334413004556 Mg binding site [ion binding]; other site 334413004557 putative protofilament interaction site [polypeptide binding]; other site 334413004558 RodZ interaction site [polypeptide binding]; other site 334413004559 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 334413004560 homotrimer interaction site [polypeptide binding]; other site 334413004561 zinc binding site [ion binding]; other site 334413004562 CDP-binding sites; other site 334413004563 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 334413004564 substrate binding site; other site 334413004565 dimer interface; other site 334413004566 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 334413004567 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 334413004568 putative active site [active] 334413004569 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 334413004570 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 334413004571 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 334413004572 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 334413004573 FeS/SAM binding site; other site 334413004574 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 334413004575 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 334413004576 dimer interface [polypeptide binding]; other site 334413004577 putative radical transfer pathway; other site 334413004578 diiron center [ion binding]; other site 334413004579 tyrosyl radical; other site 334413004580 Dehydroquinase class II; Region: DHquinase_II; pfam01220 334413004581 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 334413004582 trimer interface [polypeptide binding]; other site 334413004583 active site 334413004584 dimer interface [polypeptide binding]; other site 334413004585 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 334413004586 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 334413004587 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 334413004588 shikimate binding site; other site 334413004589 NAD(P) binding site [chemical binding]; other site 334413004590 shikimate kinase; Reviewed; Region: aroK; PRK00131 334413004591 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 334413004592 ADP binding site [chemical binding]; other site 334413004593 magnesium binding site [ion binding]; other site 334413004594 putative shikimate binding site; other site 334413004595 Chorismate mutase type II; Region: CM_2; smart00830 334413004596 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 334413004597 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 334413004598 Tetramer interface [polypeptide binding]; other site 334413004599 active site 334413004600 FMN-binding site [chemical binding]; other site 334413004601 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 334413004602 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 334413004603 hinge; other site 334413004604 active site 334413004605 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 334413004606 active site 334413004607 dimer interface [polypeptide binding]; other site 334413004608 metal binding site [ion binding]; metal-binding site 334413004609 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 334413004610 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 334413004611 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 334413004612 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 334413004613 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 334413004614 motif II; other site 334413004615 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 334413004616 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 334413004617 Walker A/P-loop; other site 334413004618 ATP binding site [chemical binding]; other site 334413004619 Q-loop/lid; other site 334413004620 ABC transporter signature motif; other site 334413004621 Walker B; other site 334413004622 D-loop; other site 334413004623 H-loop/switch region; other site 334413004624 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 334413004625 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 334413004626 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 334413004627 Walker A/P-loop; other site 334413004628 ATP binding site [chemical binding]; other site 334413004629 Q-loop/lid; other site 334413004630 ABC transporter signature motif; other site 334413004631 Walker B; other site 334413004632 D-loop; other site 334413004633 H-loop/switch region; other site 334413004634 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 334413004635 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 334413004636 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 334413004637 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 334413004638 dimer interface [polypeptide binding]; other site 334413004639 conserved gate region; other site 334413004640 putative PBP binding loops; other site 334413004641 ABC-ATPase subunit interface; other site 334413004642 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 334413004643 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 334413004644 dimer interface [polypeptide binding]; other site 334413004645 conserved gate region; other site 334413004646 putative PBP binding loops; other site 334413004647 ABC-ATPase subunit interface; other site 334413004648 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 334413004649 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 334413004650 peptide binding site [polypeptide binding]; other site 334413004651 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 334413004652 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 334413004653 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334413004654 catalytic residue [active] 334413004655 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 334413004656 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 334413004657 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 334413004658 active site 334413004659 DNA binding site [nucleotide binding] 334413004660 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334413004661 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 334413004662 tetramer interfaces [polypeptide binding]; other site 334413004663 binuclear metal-binding site [ion binding]; other site 334413004664 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 334413004665 Interdomain contacts; other site 334413004666 Cytokine receptor motif; other site 334413004667 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 334413004668 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 334413004669 active site 334413004670 metal binding site [ion binding]; metal-binding site 334413004671 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 334413004672 active site 334413004673 metal binding site [ion binding]; metal-binding site 334413004674 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413004675 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 334413004676 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413004677 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413004678 YibE/F-like protein; Region: YibE_F; pfam07907 334413004679 YibE/F-like protein; Region: YibE_F; pfam07907 334413004680 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 334413004681 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 334413004682 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413004683 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334413004684 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 334413004685 Walker A/P-loop; other site 334413004686 ATP binding site [chemical binding]; other site 334413004687 Q-loop/lid; other site 334413004688 ABC transporter signature motif; other site 334413004689 Walker B; other site 334413004690 D-loop; other site 334413004691 H-loop/switch region; other site 334413004692 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 334413004693 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334413004694 catalytic residue [active] 334413004695 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 334413004696 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 334413004697 dimer interface [polypeptide binding]; other site 334413004698 active site 334413004699 metal binding site [ion binding]; metal-binding site 334413004700 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 334413004701 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 334413004702 Walker A/P-loop; other site 334413004703 ATP binding site [chemical binding]; other site 334413004704 Q-loop/lid; other site 334413004705 ABC transporter signature motif; other site 334413004706 Walker B; other site 334413004707 D-loop; other site 334413004708 H-loop/switch region; other site 334413004709 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413004710 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334413004711 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 334413004712 EamA-like transporter family; Region: EamA; pfam00892 334413004713 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413004714 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413004715 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 334413004716 Walker A/P-loop; other site 334413004717 ATP binding site [chemical binding]; other site 334413004718 Q-loop/lid; other site 334413004719 ABC transporter signature motif; other site 334413004720 Walker B; other site 334413004721 D-loop; other site 334413004722 H-loop/switch region; other site 334413004723 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 334413004724 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 334413004725 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 334413004726 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 334413004727 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 334413004728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413004729 Walker A/P-loop; other site 334413004730 ATP binding site [chemical binding]; other site 334413004731 Q-loop/lid; other site 334413004732 ABC transporter signature motif; other site 334413004733 Walker B; other site 334413004734 D-loop; other site 334413004735 H-loop/switch region; other site 334413004736 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413004737 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413004738 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 334413004739 Walker A/P-loop; other site 334413004740 ATP binding site [chemical binding]; other site 334413004741 Q-loop/lid; other site 334413004742 ABC transporter signature motif; other site 334413004743 Walker B; other site 334413004744 D-loop; other site 334413004745 H-loop/switch region; other site 334413004746 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 334413004747 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 334413004748 FeS/SAM binding site; other site 334413004749 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 334413004750 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 334413004751 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334413004752 catalytic residue [active] 334413004753 Predicted transcriptional regulators [Transcription]; Region: COG1725 334413004754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334413004755 DNA-binding site [nucleotide binding]; DNA binding site 334413004756 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 334413004757 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334413004758 Walker A/P-loop; other site 334413004759 ATP binding site [chemical binding]; other site 334413004760 Q-loop/lid; other site 334413004761 ABC transporter signature motif; other site 334413004762 Walker B; other site 334413004763 D-loop; other site 334413004764 H-loop/switch region; other site 334413004765 Chromate transporter; Region: Chromate_transp; pfam02417 334413004766 Chromate transporter; Region: Chromate_transp; pfam02417 334413004767 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 334413004768 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 334413004769 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 334413004770 intersubunit interface [polypeptide binding]; other site 334413004771 active site 334413004772 zinc binding site [ion binding]; other site 334413004773 Na+ binding site [ion binding]; other site 334413004774 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 334413004775 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 334413004776 active site 334413004777 phosphorylation site [posttranslational modification] 334413004778 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 334413004779 active site 334413004780 P-loop; other site 334413004781 phosphorylation site [posttranslational modification] 334413004782 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 334413004783 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 334413004784 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 334413004785 putative substrate binding site [chemical binding]; other site 334413004786 putative ATP binding site [chemical binding]; other site 334413004787 Maf-like protein; Region: Maf; pfam02545 334413004788 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 334413004789 active site 334413004790 dimer interface [polypeptide binding]; other site 334413004791 Protein of unknown function (DUF523); Region: DUF523; pfam04463 334413004792 Predicted membrane protein [Function unknown]; Region: COG2855 334413004793 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413004794 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413004795 Walker A/P-loop; other site 334413004796 Q-loop/lid; other site 334413004797 lipoyl synthase; Provisional; Region: PRK05481 334413004798 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 334413004799 FeS/SAM binding site; other site 334413004800 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 334413004801 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 334413004802 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 334413004803 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 334413004804 trimer interface [polypeptide binding]; other site 334413004805 putative Zn binding site [ion binding]; other site 334413004806 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 334413004807 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 334413004808 DEAD_2; Region: DEAD_2; pfam06733 334413004809 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 334413004810 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 334413004811 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 334413004812 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 334413004813 putative dimer interface [polypeptide binding]; other site 334413004814 catalytic triad [active] 334413004815 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334413004816 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334413004817 Coenzyme A binding pocket [chemical binding]; other site 334413004818 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 334413004819 dinuclear metal binding motif [ion binding]; other site 334413004820 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 334413004821 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334413004822 Coenzyme A binding pocket [chemical binding]; other site 334413004823 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 334413004824 AAA ATPase domain; Region: AAA_16; pfam13191 334413004825 AAA domain; Region: AAA_14; pfam13173 334413004826 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 334413004827 putative DNA binding site [nucleotide binding]; other site 334413004828 putative Zn2+ binding site [ion binding]; other site 334413004829 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 334413004830 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 334413004831 FtsX-like permease family; Region: FtsX; pfam02687 334413004832 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334413004833 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334413004834 Walker A/P-loop; other site 334413004835 ATP binding site [chemical binding]; other site 334413004836 Q-loop/lid; other site 334413004837 ABC transporter signature motif; other site 334413004838 Walker B; other site 334413004839 D-loop; other site 334413004840 H-loop/switch region; other site 334413004841 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 334413004842 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 334413004843 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334413004844 Walker A/P-loop; other site 334413004845 ATP binding site [chemical binding]; other site 334413004846 Q-loop/lid; other site 334413004847 ABC transporter signature motif; other site 334413004848 Walker B; other site 334413004849 D-loop; other site 334413004850 H-loop/switch region; other site 334413004851 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 334413004852 elongation factor G; Reviewed; Region: PRK12740 334413004853 G1 box; other site 334413004854 putative GEF interaction site [polypeptide binding]; other site 334413004855 GTP/Mg2+ binding site [chemical binding]; other site 334413004856 Switch I region; other site 334413004857 G2 box; other site 334413004858 G3 box; other site 334413004859 Switch II region; other site 334413004860 G4 box; other site 334413004861 G5 box; other site 334413004862 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 334413004863 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 334413004864 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 334413004865 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 334413004866 substrate binding site [chemical binding]; other site 334413004867 THF binding site; other site 334413004868 zinc-binding site [ion binding]; other site 334413004869 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 334413004870 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 334413004871 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 334413004872 dimer interface [polypeptide binding]; other site 334413004873 conserved gate region; other site 334413004874 ABC-ATPase subunit interface; other site 334413004875 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 334413004876 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 334413004877 Walker A/P-loop; other site 334413004878 ATP binding site [chemical binding]; other site 334413004879 Q-loop/lid; other site 334413004880 ABC transporter signature motif; other site 334413004881 Walker B; other site 334413004882 D-loop; other site 334413004883 H-loop/switch region; other site 334413004884 NIL domain; Region: NIL; pfam09383 334413004885 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12364 334413004886 ATP cone domain; Region: ATP-cone; pfam03477 334413004887 Class I ribonucleotide reductase; Region: RNR_I; cd01679 334413004888 active site 334413004889 dimer interface [polypeptide binding]; other site 334413004890 catalytic residues [active] 334413004891 effector binding site; other site 334413004892 R2 peptide binding site; other site 334413004893 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413004894 ATP binding site [chemical binding]; other site 334413004895 Walker A/P-loop; other site 334413004896 Q-loop/lid; other site 334413004897 Protein of unknown function (DUF554); Region: DUF554; pfam04474 334413004898 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 334413004899 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 334413004900 OPT oligopeptide transporter protein; Region: OPT; cl14607 334413004901 putative oligopeptide transporter, OPT family; Region: TIGR00733 334413004902 DAK2 domain; Region: Dak2; pfam02734 334413004903 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 334413004904 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 334413004905 RNA binding surface [nucleotide binding]; other site 334413004906 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 334413004907 active site 334413004908 uracil binding [chemical binding]; other site 334413004909 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 334413004910 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 334413004911 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 334413004912 NAD(P) binding site [chemical binding]; other site 334413004913 catalytic residues [active] 334413004914 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 334413004915 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 334413004916 P loop; other site 334413004917 Nucleotide binding site [chemical binding]; other site 334413004918 Chain length determinant protein; Region: Wzz; cl15801 334413004919 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 334413004920 topology modulation protein; Provisional; Region: PRK07261 334413004921 AAA domain; Region: AAA_17; pfam13207 334413004922 Rib/alpha-like repeat; Region: Rib; pfam08428 334413004923 Cna protein B-type domain; Region: Cna_B; pfam05738 334413004924 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 334413004925 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334413004926 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 334413004927 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 334413004928 conserved cys residue [active] 334413004929 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 334413004930 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 334413004931 HSP70 interaction site [polypeptide binding]; other site 334413004932 FtsX-like permease family; Region: FtsX; pfam02687 334413004933 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 334413004934 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 334413004935 FtsX-like permease family; Region: FtsX; pfam02687 334413004936 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334413004937 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334413004938 Walker A/P-loop; other site 334413004939 ATP binding site [chemical binding]; other site 334413004940 Q-loop/lid; other site 334413004941 ABC transporter signature motif; other site 334413004942 Walker B; other site 334413004943 D-loop; other site 334413004944 H-loop/switch region; other site 334413004945 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334413004946 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334413004947 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 334413004948 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 334413004949 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 334413004950 FMN binding site [chemical binding]; other site 334413004951 dimer interface [polypeptide binding]; other site 334413004952 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 334413004953 DNA-binding site [nucleotide binding]; DNA binding site 334413004954 RNA-binding motif; other site 334413004955 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 334413004956 A new structural DNA glycosylase; Region: AlkD_like; cd06561 334413004957 active site 334413004958 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 334413004959 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 334413004960 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413004961 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413004962 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413004963 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334413004964 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334413004965 Walker A/P-loop; other site 334413004966 ATP binding site [chemical binding]; other site 334413004967 Q-loop/lid; other site 334413004968 ABC transporter signature motif; other site 334413004969 Walker B; other site 334413004970 D-loop; other site 334413004971 H-loop/switch region; other site 334413004972 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 334413004973 FtsX-like permease family; Region: FtsX; pfam02687 334413004974 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 334413004975 Transcriptional regulator [Transcription]; Region: LysR; COG0583 334413004976 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 334413004977 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 334413004978 dimerization interface [polypeptide binding]; other site 334413004979 Uncharacterized conserved protein [Function unknown]; Region: COG0398 334413004980 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 334413004981 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 334413004982 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 334413004983 tetramer interface [polypeptide binding]; other site 334413004984 active site 334413004985 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 334413004986 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 334413004987 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 334413004988 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 334413004989 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 334413004990 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 334413004991 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 334413004992 dimerization interface [polypeptide binding]; other site 334413004993 ATP binding site [chemical binding]; other site 334413004994 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 334413004995 dimerization interface [polypeptide binding]; other site 334413004996 ATP binding site [chemical binding]; other site 334413004997 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 334413004998 conserved cys residue [active] 334413004999 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 334413005000 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 334413005001 purine monophosphate binding site [chemical binding]; other site 334413005002 dimer interface [polypeptide binding]; other site 334413005003 putative catalytic residues [active] 334413005004 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 334413005005 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 334413005006 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 334413005007 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 334413005008 active site 334413005009 substrate binding site [chemical binding]; other site 334413005010 cosubstrate binding site; other site 334413005011 catalytic site [active] 334413005012 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 334413005013 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 334413005014 active site 334413005015 tetramer interface [polypeptide binding]; other site 334413005016 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334413005017 active site 334413005018 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 334413005019 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 334413005020 ATP binding site [chemical binding]; other site 334413005021 active site 334413005022 substrate binding site [chemical binding]; other site 334413005023 Ion channel; Region: Ion_trans_2; pfam07885 334413005024 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 334413005025 TrkA-N domain; Region: TrkA_N; pfam02254 334413005026 TrkA-C domain; Region: TrkA_C; pfam02080 334413005027 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 334413005028 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 334413005029 active site 334413005030 FMN binding site [chemical binding]; other site 334413005031 substrate binding site [chemical binding]; other site 334413005032 putative catalytic residue [active] 334413005033 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 334413005034 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 334413005035 [2Fe-2S] cluster binding site [ion binding]; other site 334413005036 putative dimer interface [polypeptide binding]; other site 334413005037 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 334413005038 Predicted membrane protein [Function unknown]; Region: COG4129 334413005039 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 334413005040 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 334413005041 MgtC family; Region: MgtC; pfam02308 334413005042 Uncharacterized conserved protein [Function unknown]; Region: COG1479 334413005043 Protein of unknown function DUF262; Region: DUF262; pfam03235 334413005044 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 334413005045 Uncharacterized conserved protein [Function unknown]; Region: COG3586 334413005046 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 334413005047 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 334413005048 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 334413005049 ATP binding site [chemical binding]; other site 334413005050 putative Mg++ binding site [ion binding]; other site 334413005051 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 334413005052 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 334413005053 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 334413005054 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 334413005055 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 334413005056 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 334413005057 active site 334413005058 DNA binding site [nucleotide binding] 334413005059 Int/Topo IB signature motif; other site 334413005060 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 334413005061 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 334413005062 HsdM N-terminal domain; Region: HsdM_N; pfam12161 334413005063 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 334413005064 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 334413005065 S-adenosylmethionine binding site [chemical binding]; other site 334413005066 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 334413005067 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 334413005068 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 334413005069 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 334413005070 Methyltransferase domain; Region: Methyltransf_31; pfam13847 334413005071 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 334413005072 S-adenosylmethionine binding site [chemical binding]; other site 334413005073 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 334413005074 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 334413005075 Short C-terminal domain; Region: SHOCT; pfam09851 334413005076 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 334413005077 ATP binding site [chemical binding]; other site 334413005078 Mg2+ binding site [ion binding]; other site 334413005079 G-X-G motif; other site 334413005080 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 334413005081 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 334413005082 active site 334413005083 phosphorylation site [posttranslational modification] 334413005084 intermolecular recognition site; other site 334413005085 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 334413005086 DNA binding residues [nucleotide binding] 334413005087 dimerization interface [polypeptide binding]; other site 334413005088 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 334413005089 H+ Antiporter protein; Region: 2A0121; TIGR00900 334413005090 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 334413005091 dimerization interface [polypeptide binding]; other site 334413005092 putative DNA binding site [nucleotide binding]; other site 334413005093 putative Zn2+ binding site [ion binding]; other site 334413005094 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 334413005095 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 334413005096 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334413005097 ABC transporter; Region: ABC_tran_2; pfam12848 334413005098 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 334413005099 ParB-like nuclease domain; Region: ParBc; cl02129 334413005100 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334413005101 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334413005102 Walker A/P-loop; other site 334413005103 ATP binding site [chemical binding]; other site 334413005104 Q-loop/lid; other site 334413005105 ABC transporter signature motif; other site 334413005106 Walker B; other site 334413005107 D-loop; other site 334413005108 H-loop/switch region; other site 334413005109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413005110 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 334413005111 Walker A/P-loop; other site 334413005112 ATP binding site [chemical binding]; other site 334413005113 Q-loop/lid; other site 334413005114 ABC transporter signature motif; other site 334413005115 Walker B; other site 334413005116 D-loop; other site 334413005117 H-loop/switch region; other site 334413005118 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 334413005119 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 334413005120 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 334413005121 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 334413005122 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413005123 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413005124 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413005125 Walker A/P-loop; other site 334413005126 ATP binding site [chemical binding]; other site 334413005127 Q-loop/lid; other site 334413005128 ABC transporter signature motif; other site 334413005129 Walker B; other site 334413005130 D-loop; other site 334413005131 H-loop/switch region; other site 334413005132 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413005133 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413005134 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413005135 Walker A/P-loop; other site 334413005136 ATP binding site [chemical binding]; other site 334413005137 Q-loop/lid; other site 334413005138 ABC transporter signature motif; other site 334413005139 Walker B; other site 334413005140 D-loop; other site 334413005141 H-loop/switch region; other site 334413005142 Helix-turn-helix domain; Region: HTH_18; pfam12833 334413005143 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 334413005144 Fic/DOC family; Region: Fic; pfam02661 334413005145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 334413005146 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 334413005147 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 334413005148 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413005149 Walker A/P-loop; other site 334413005150 ATP binding site [chemical binding]; other site 334413005151 Q-loop/lid; other site 334413005152 ABC transporter signature motif; other site 334413005153 Walker B; other site 334413005154 D-loop; other site 334413005155 H-loop/switch region; other site 334413005156 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 334413005157 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 334413005158 active site 334413005159 phosphorylation site [posttranslational modification] 334413005160 intermolecular recognition site; other site 334413005161 dimerization interface [polypeptide binding]; other site 334413005162 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 334413005163 DNA binding site [nucleotide binding] 334413005164 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 334413005165 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 334413005166 dimer interface [polypeptide binding]; other site 334413005167 phosphorylation site [posttranslational modification] 334413005168 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 334413005169 ATP binding site [chemical binding]; other site 334413005170 Mg2+ binding site [ion binding]; other site 334413005171 G-X-G motif; other site 334413005172 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413005173 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413005174 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 334413005175 Walker A/P-loop; other site 334413005176 ATP binding site [chemical binding]; other site 334413005177 Q-loop/lid; other site 334413005178 ABC transporter signature motif; other site 334413005179 Walker B; other site 334413005180 D-loop; other site 334413005181 H-loop/switch region; other site 334413005182 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413005183 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413005184 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413005185 Walker A/P-loop; other site 334413005186 ATP binding site [chemical binding]; other site 334413005187 Q-loop/lid; other site 334413005188 ABC transporter signature motif; other site 334413005189 Walker B; other site 334413005190 D-loop; other site 334413005191 H-loop/switch region; other site 334413005192 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 334413005193 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 334413005194 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334413005195 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334413005196 Walker A/P-loop; other site 334413005197 ATP binding site [chemical binding]; other site 334413005198 Q-loop/lid; other site 334413005199 ABC transporter signature motif; other site 334413005200 Walker B; other site 334413005201 D-loop; other site 334413005202 H-loop/switch region; other site 334413005203 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334413005204 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413005205 Walker A/P-loop; other site 334413005206 ATP binding site [chemical binding]; other site 334413005207 Q-loop/lid; other site 334413005208 ABC transporter signature motif; other site 334413005209 Walker B; other site 334413005210 D-loop; other site 334413005211 H-loop/switch region; other site 334413005212 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 334413005213 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 334413005214 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334413005215 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334413005216 chromosome segregation protein; Provisional; Region: PRK03918 334413005217 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 334413005218 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 334413005219 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 334413005220 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 334413005221 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 334413005222 S-adenosylmethionine binding site [chemical binding]; other site 334413005223 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413005224 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413005225 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 334413005226 Walker A/P-loop; other site 334413005227 ATP binding site [chemical binding]; other site 334413005228 Q-loop/lid; other site 334413005229 ABC transporter signature motif; other site 334413005230 Walker B; other site 334413005231 D-loop; other site 334413005232 H-loop/switch region; other site 334413005233 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413005234 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 334413005235 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413005236 Walker A/P-loop; other site 334413005237 ATP binding site [chemical binding]; other site 334413005238 Q-loop/lid; other site 334413005239 ABC transporter signature motif; other site 334413005240 Walker B; other site 334413005241 D-loop; other site 334413005242 H-loop/switch region; other site 334413005243 MarR family; Region: MarR_2; pfam12802 334413005244 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 334413005245 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 334413005246 molybdenum cofactor biosynthesis protein MoaC/MOSC-domain-containing protein; Provisional; Region: PRK14499 334413005247 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 334413005248 trimer interface [polypeptide binding]; other site 334413005249 dimer interface [polypeptide binding]; other site 334413005250 putative active site [active] 334413005251 MOSC domain; Region: MOSC; pfam03473 334413005252 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 334413005253 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 334413005254 FeS/SAM binding site; other site 334413005255 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 334413005256 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 334413005257 GIY-YIG motif/motif A; other site 334413005258 active site 334413005259 catalytic site [active] 334413005260 metal binding site [ion binding]; metal-binding site 334413005261 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 334413005262 Uncharacterized membrane protein [Function unknown]; Region: COG3949 334413005263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 334413005264 Nucleoside recognition; Region: Gate; pfam07670 334413005265 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 334413005266 KilA-N domain; Region: KilA-N; pfam04383 334413005267 KilA-N domain; Region: KilA-N; pfam04383 334413005268 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 334413005269 Peptidase family C69; Region: Peptidase_C69; pfam03577 334413005270 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 334413005271 active site 334413005272 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334413005273 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334413005274 Walker A/P-loop; other site 334413005275 ATP binding site [chemical binding]; other site 334413005276 Q-loop/lid; other site 334413005277 ABC transporter signature motif; other site 334413005278 Walker B; other site 334413005279 D-loop; other site 334413005280 H-loop/switch region; other site 334413005281 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 334413005282 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 334413005283 Walker A/P-loop; other site 334413005284 ATP binding site [chemical binding]; other site 334413005285 Q-loop/lid; other site 334413005286 ABC transporter signature motif; other site 334413005287 Walker B; other site 334413005288 D-loop; other site 334413005289 H-loop/switch region; other site 334413005290 Cobalt transport protein; Region: CbiQ; cl00463 334413005291 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 334413005292 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 334413005293 Coenzyme A binding pocket [chemical binding]; other site 334413005294 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 334413005295 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 334413005296 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 334413005297 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 334413005298 RNA binding site [nucleotide binding]; other site 334413005299 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 334413005300 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 334413005301 ATP-binding site [chemical binding]; other site 334413005302 Sugar specificity; other site 334413005303 Pyrimidine base specificity; other site 334413005304 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 334413005305 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 334413005306 active site 334413005307 HIGH motif; other site 334413005308 dimer interface [polypeptide binding]; other site 334413005309 KMSKS motif; other site 334413005310 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 334413005311 RNA binding surface [nucleotide binding]; other site 334413005312 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 334413005313 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 334413005314 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 334413005315 putative active site [active] 334413005316 catalytic site [active] 334413005317 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 334413005318 putative active site [active] 334413005319 catalytic site [active] 334413005320 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 334413005321 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 334413005322 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 334413005323 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 334413005324 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 334413005325 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005326 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 334413005327 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005328 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005329 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 334413005330 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 334413005331 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 334413005332 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 334413005333 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 334413005334 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 334413005335 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 334413005336 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 334413005337 active site 334413005338 multimer interface [polypeptide binding]; other site 334413005339 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 334413005340 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 334413005341 DNA-binding site [nucleotide binding]; DNA binding site 334413005342 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 334413005343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334413005344 homodimer interface [polypeptide binding]; other site 334413005345 catalytic residue [active] 334413005346 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 334413005347 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 334413005348 metal binding site [ion binding]; metal-binding site 334413005349 dimer interface [polypeptide binding]; other site 334413005350 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 334413005351 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 334413005352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 334413005353 homodimer interface [polypeptide binding]; other site 334413005354 catalytic residue [active] 334413005355 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 334413005356 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 334413005357 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 334413005358 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 334413005359 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 334413005360 BCCT family transporter; Region: BCCT; pfam02028 334413005361 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 334413005362 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; pfam07355 334413005363 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 334413005364 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 334413005365 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 334413005366 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 334413005367 active site 334413005368 HIGH motif; other site 334413005369 dimer interface [polypeptide binding]; other site 334413005370 KMSKS motif; other site 334413005371 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 334413005372 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 334413005373 putative active site [active] 334413005374 putative metal binding site [ion binding]; other site 334413005375 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 334413005376 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 334413005377 YcfA-like protein; Region: YcfA; pfam07927 334413005378 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 334413005379 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 334413005380 23S rRNA interface [nucleotide binding]; other site 334413005381 L3 interface [polypeptide binding]; other site 334413005382 Cupin domain; Region: Cupin_2; pfam07883 334413005383 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 334413005384 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 334413005385 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 334413005386 Walker A/P-loop; other site 334413005387 ATP binding site [chemical binding]; other site 334413005388 Q-loop/lid; other site 334413005389 ABC transporter signature motif; other site 334413005390 Walker B; other site 334413005391 D-loop; other site 334413005392 H-loop/switch region; other site 334413005393 Protein of unknown function (DUF523); Region: DUF523; cl00733 334413005394 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005395 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005396 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005397 Domain of unknown function DUF77; Region: DUF77; pfam01910 334413005398 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 334413005399 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 334413005400 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 334413005401 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 334413005402 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 334413005403 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 334413005404 FeS/SAM binding site; other site 334413005405 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 334413005406 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 334413005407 ligand binding site [chemical binding]; other site 334413005408 flexible hinge region; other site 334413005409 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 334413005410 putative switch regulator; other site 334413005411 non-specific DNA interactions [nucleotide binding]; other site 334413005412 DNA binding site [nucleotide binding] 334413005413 sequence specific DNA binding site [nucleotide binding]; other site 334413005414 putative cAMP binding site [chemical binding]; other site 334413005415 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 334413005416 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 334413005417 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 334413005418 comF family protein; Region: comF; TIGR00201 334413005419 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 334413005420 active site 334413005421 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 334413005422 AAA domain; Region: AAA_30; pfam13604 334413005423 Family description; Region: UvrD_C_2; pfam13538 334413005424 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 334413005425 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 334413005426 hinge; other site 334413005427 active site 334413005428 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005429 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005430 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005431 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 334413005432 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334413005433 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334413005434 Substrate binding site [chemical binding]; other site 334413005435 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334413005436 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334413005437 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 334413005438 Leucine rich repeat; Region: LRR_8; pfam13855 334413005439 Predicted membrane protein [Function unknown]; Region: COG4684 334413005440 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 334413005441 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 334413005442 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 334413005443 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 334413005444 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 334413005445 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 334413005446 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 334413005447 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005448 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005449 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005450 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 334413005451 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005452 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005453 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005454 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 334413005455 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413005456 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413005457 Walker A/P-loop; other site 334413005458 ATP binding site [chemical binding]; other site 334413005459 Q-loop/lid; other site 334413005460 ABC transporter signature motif; other site 334413005461 Walker B; other site 334413005462 D-loop; other site 334413005463 H-loop/switch region; other site 334413005464 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 334413005465 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413005466 Walker A/P-loop; other site 334413005467 ATP binding site [chemical binding]; other site 334413005468 Q-loop/lid; other site 334413005469 ABC transporter signature motif; other site 334413005470 Walker B; other site 334413005471 D-loop; other site 334413005472 H-loop/switch region; other site 334413005473 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 334413005474 ATP binding site [chemical binding]; other site 334413005475 Mg2+ binding site [ion binding]; other site 334413005476 G-X-G motif; other site 334413005477 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 334413005478 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 334413005479 active site 334413005480 phosphorylation site [posttranslational modification] 334413005481 intermolecular recognition site; other site 334413005482 dimerization interface [polypeptide binding]; other site 334413005483 LytTr DNA-binding domain; Region: LytTR; cl04498 334413005484 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 334413005485 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 334413005486 active site 334413005487 tetramer interface; other site 334413005488 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 334413005489 Clp amino terminal domain; Region: Clp_N; pfam02861 334413005490 Clp amino terminal domain; Region: Clp_N; pfam02861 334413005491 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 334413005492 Walker A motif; other site 334413005493 ATP binding site [chemical binding]; other site 334413005494 Walker B motif; other site 334413005495 arginine finger; other site 334413005496 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 334413005497 Walker A motif; other site 334413005498 ATP binding site [chemical binding]; other site 334413005499 Walker B motif; other site 334413005500 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 334413005501 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 334413005502 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 334413005503 HSP70 interaction site [polypeptide binding]; other site 334413005504 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 334413005505 substrate binding site [polypeptide binding]; other site 334413005506 dimer interface [polypeptide binding]; other site 334413005507 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 334413005508 FMN binding site [chemical binding]; other site 334413005509 dimer interface [polypeptide binding]; other site 334413005510 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 334413005511 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 334413005512 DNA binding residues [nucleotide binding] 334413005513 Major Facilitator Superfamily; Region: MFS_1; pfam07690 334413005514 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 334413005515 Peptidase family M50; Region: Peptidase_M50; pfam02163 334413005516 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; cd05709 334413005517 active site 334413005518 putative substrate binding region [chemical binding]; other site 334413005519 RIP metalloprotease RseP; Region: TIGR00054 334413005520 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 334413005521 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 334413005522 FeS/SAM binding site; other site 334413005523 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 334413005524 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 334413005525 catalytic triad [active] 334413005526 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 334413005527 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 334413005528 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 334413005529 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 334413005530 metal binding site [ion binding]; metal-binding site 334413005531 dimer interface [polypeptide binding]; other site 334413005532 peptide chain release factor 2; Provisional; Region: PRK05589 334413005533 PCRF domain; Region: PCRF; pfam03462 334413005534 RF-1 domain; Region: RF-1; pfam00472 334413005535 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 334413005536 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 334413005537 ATP binding site [chemical binding]; other site 334413005538 putative Mg++ binding site [ion binding]; other site 334413005539 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 334413005540 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 334413005541 nucleotide binding region [chemical binding]; other site 334413005542 SEC-C motif; Region: SEC-C; pfam02810 334413005543 HsdM N-terminal domain; Region: HsdM_N; pfam12161 334413005544 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 334413005545 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 334413005546 S-adenosylmethionine binding site [chemical binding]; other site 334413005547 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 334413005548 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 334413005549 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 334413005550 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 334413005551 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 334413005552 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 334413005553 ATP binding site [chemical binding]; other site 334413005554 putative Mg++ binding site [ion binding]; other site 334413005555 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 334413005556 RelB antitoxin; Region: RelB; cl01171 334413005557 putative translaldolase; Provisional; Region: PRK12376 334413005558 catalytic residue [active] 334413005559 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 334413005560 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 334413005561 active site 334413005562 P-loop; other site 334413005563 phosphorylation site [posttranslational modification] 334413005564 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 334413005565 active site 334413005566 phosphorylation site [posttranslational modification] 334413005567 Predicted permeases [General function prediction only]; Region: COG0679 334413005568 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 334413005569 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 334413005570 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 334413005571 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 334413005572 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 334413005573 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 334413005574 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 334413005575 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 334413005576 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 334413005577 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 334413005578 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 334413005579 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 334413005580 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 334413005581 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 334413005582 substrate binding site [chemical binding]; other site 334413005583 dimer interface [polypeptide binding]; other site 334413005584 ATP binding site [chemical binding]; other site 334413005585 G5 domain; Region: G5; pfam07501 334413005586 G5 domain; Region: G5; pfam07501 334413005587 G5 domain; Region: G5; pfam07501 334413005588 G5 domain; Region: G5; pfam07501 334413005589 G5 domain; Region: G5; pfam07501 334413005590 G5 domain; Region: G5; pfam07501 334413005591 G5 domain; Region: G5; pfam07501 334413005592 G5 domain; Region: G5; pfam07501 334413005593 G5 domain; Region: G5; pfam07501 334413005594 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005595 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005596 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 334413005597 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 334413005598 Walker A/P-loop; other site 334413005599 ATP binding site [chemical binding]; other site 334413005600 ABC transporter; Region: ABC_tran; pfam00005 334413005601 ABC transporter signature motif; other site 334413005602 Walker B; other site 334413005603 D-loop; other site 334413005604 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 334413005605 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 334413005606 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 334413005607 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 334413005608 dimer interface [polypeptide binding]; other site 334413005609 conserved gate region; other site 334413005610 putative PBP binding loops; other site 334413005611 ABC-ATPase subunit interface; other site 334413005612 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 334413005613 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 334413005614 dimer interface [polypeptide binding]; other site 334413005615 conserved gate region; other site 334413005616 putative PBP binding loops; other site 334413005617 ABC-ATPase subunit interface; other site 334413005618 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 334413005619 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 334413005620 Walker A/P-loop; other site 334413005621 ATP binding site [chemical binding]; other site 334413005622 Q-loop/lid; other site 334413005623 ABC transporter signature motif; other site 334413005624 Walker B; other site 334413005625 D-loop; other site 334413005626 H-loop/switch region; other site 334413005627 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 334413005628 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 334413005629 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 334413005630 Walker A/P-loop; other site 334413005631 ATP binding site [chemical binding]; other site 334413005632 Q-loop/lid; other site 334413005633 ABC transporter signature motif; other site 334413005634 Walker B; other site 334413005635 D-loop; other site 334413005636 H-loop/switch region; other site 334413005637 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 334413005638 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 334413005639 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 334413005640 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 334413005641 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 334413005642 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 334413005643 motif II; other site 334413005644 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 334413005645 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 334413005646 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 334413005647 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 334413005648 putative deacylase active site [active] 334413005649 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 334413005650 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 334413005651 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 334413005652 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 334413005653 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 334413005654 catalytic motif [active] 334413005655 Zn binding site [ion binding]; other site 334413005656 pyruvate carboxylase; Reviewed; Region: PRK12999 334413005657 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 334413005658 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 334413005659 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 334413005660 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 334413005661 active site 334413005662 catalytic residues [active] 334413005663 metal binding site [ion binding]; metal-binding site 334413005664 homodimer binding site [polypeptide binding]; other site 334413005665 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 334413005666 carboxyltransferase (CT) interaction site; other site 334413005667 biotinylation site [posttranslational modification]; other site 334413005668 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 334413005669 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 334413005670 catalytic residues [active] 334413005671 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 334413005672 FMN-binding domain; Region: FMN_bind; cl01081 334413005673 FMN-binding domain; Region: FMN_bind; cl01081 334413005674 FMN-binding domain; Region: FMN_bind; cl01081 334413005675 FMN-binding domain; Region: FMN_bind; cl01081 334413005676 FMN-binding domain; Region: FMN_bind; cl01081 334413005677 FMN-binding domain; Region: FMN_bind; cl01081 334413005678 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 334413005679 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 334413005680 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 334413005681 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 334413005682 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 334413005683 DRTGG domain; Region: DRTGG; pfam07085 334413005684 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 334413005685 DHH family; Region: DHH; pfam01368 334413005686 DHHA2 domain; Region: DHHA2; pfam02833 334413005687 Isochorismatase family; Region: Isochorismatase; pfam00857 334413005688 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 334413005689 catalytic triad [active] 334413005690 conserved cis-peptide bond; other site 334413005691 RelB antitoxin; Region: RelB; cl01171 334413005692 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 334413005693 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 334413005694 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 334413005695 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 334413005696 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334413005697 catalytic residue [active] 334413005698 CAAX protease self-immunity; Region: Abi; pfam02517 334413005699 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 334413005700 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 334413005701 Walker A/P-loop; other site 334413005702 ATP binding site [chemical binding]; other site 334413005703 Q-loop/lid; other site 334413005704 ABC transporter signature motif; other site 334413005705 Walker B; other site 334413005706 D-loop; other site 334413005707 H-loop/switch region; other site 334413005708 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 334413005709 Uncharacterized conserved protein [Function unknown]; Region: COG1284 334413005710 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 334413005711 Rubrerythrin [Energy production and conversion]; Region: COG1592 334413005712 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 334413005713 binuclear metal center [ion binding]; other site 334413005714 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 334413005715 iron binding site [ion binding]; other site 334413005716 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 334413005717 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 334413005718 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 334413005719 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 334413005720 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 334413005721 ligand binding site [chemical binding]; other site 334413005722 flexible hinge region; other site 334413005723 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 334413005724 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 334413005725 Na2 binding site [ion binding]; other site 334413005726 putative substrate binding site 1 [chemical binding]; other site 334413005727 Na binding site 1 [ion binding]; other site 334413005728 putative substrate binding site 2 [chemical binding]; other site 334413005729 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 334413005730 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; pfam07355 334413005731 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 334413005732 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 334413005733 TraX protein; Region: TraX; pfam05857 334413005734 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 334413005735 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 334413005736 active site residue [active] 334413005737 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 334413005738 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 334413005739 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 334413005740 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 334413005741 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 334413005742 catalytic residue [active] 334413005743 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 334413005744 ParB-like nuclease domain; Region: ParB; smart00470 334413005745 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 334413005746 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 334413005747 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 334413005748 P-loop; other site 334413005749 Magnesium ion binding site [ion binding]; other site 334413005750 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 334413005751 Magnesium ion binding site [ion binding]; other site 334413005752 competence damage-inducible protein A; Provisional; Region: PRK00549 334413005753 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 334413005754 putative MPT binding site; other site 334413005755 Competence-damaged protein; Region: CinA; pfam02464 334413005756 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 334413005757 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 334413005758 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 334413005759 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 334413005760 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 334413005761 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 334413005762 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 334413005763 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 334413005764 trmE is a tRNA modification GTPase; Region: trmE; cd04164 334413005765 G1 box; other site 334413005766 GTP/Mg2+ binding site [chemical binding]; other site 334413005767 Switch I region; other site 334413005768 G2 box; other site 334413005769 Switch II region; other site 334413005770 G3 box; other site 334413005771 G4 box; other site 334413005772 G5 box; other site 334413005773 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 334413005774 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 334413005775 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 334413005776 G-X-X-G motif; other site 334413005777 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 334413005778 RxxxH motif; other site 334413005779 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 334413005780 Haemolytic domain; Region: Haemolytic; pfam01809 334413005781 ribonuclease P; Reviewed; Region: rnpA; PRK00499 334413005782 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 334413005783 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 334413005784 dimerization interface [polypeptide binding]; other site 334413005785 putative DNA binding site [nucleotide binding]; other site 334413005786 putative Zn2+ binding site [ion binding]; other site 334413005787 Methyltransferase domain; Region: Methyltransf_31; pfam13847 334413005788 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